Biopython seq jobs

I am seeking a capable R programmer, ideally with background biology/sequencing, at best in single-cell RNA-seq interpretation and an understanding of the Seurat library. The successful freelancer will draft a set of documents in both .md and .PDF format, demonstrating the usage of the open-source R scRNAseq library "". The tasks include: - Utilization of a published single-cell RNA-seq dataset in Seurat format. - Demonstrating approximately 50% of the functions listed on vertesy's ' Github page. - Primarily showcasing the "Visualization" functions, with output plots, and others from the library. Ideal skills include: - Proficiency in writing in R programming language, and Vignettes. - Good knowledge of Github and Markdown. - Understanding ...

...designing of additional screens. Also, we need to demonstrate the below logic through some screens somehow: 1. Ideally queue works in the sequence the user registered 2. Once the queue starts getting filled, the user's location is required to confirm their position in the queue. Those checked in get prioritized based on the order they registered in the queue and not in the order they checked in. e.g.: Seq of registration is A B C D E F. B D and F checked in. D checked in first followed by F and then B. The new order will be BDFACE. This is live based on what sequence had already been called. in the above case, while D and F both checked in, the queue moved with B not checked in yet, the order will be DFABCE. let's say while D is being attended to and next is F if B ch...

As a research team, we are passionately engaged in harnessing the power of bioinformatics for deep scientific insights. Our current project involves a significant proportion of RNA-sequencing work, requiring experts skilled in both R and Python. Looking for individuals with: 1. R Programming Skills: Important for creating robust R packages to handle our diverse data types, mainly transcriptomic and imaging data. 2. Python - Machine Learning: Required for building and implementing predictive models using our dataset. Your role would involve not just writing the code, but to confirm its accuracy and predictive power using real-world data. The perfect fit would be someone who is fluent in both languages and differentiates between when to use each optimally. Ability to implement best practi...

SEQ REGION LOCAL ONLY - ENGINEER APPROVAL REQUIRED. I am looking for an experienced engineer who specializes in residential engineering drawings. The project requires the creation of detailed drawings based on specific requirements. Although I do not have a base drawing, I can provide references and CAD files with current approved site plans. Ideal Skills and Experience: - Proficient in civil engineering drawings - Strong attention to detail - Ability to understand and incorporate specific requirements - Familiarity with referencing and incorporating external sources The element of this job are: 1. Retrospective drawing of an existing ATCO transportable dwelling 2. Amend the current site plan to include the drawings of the secondary dwelling the footings and a patio. These draw...

...operations from all computers. The application program must invoke the distributed mutual exclusion primitive before and after the actually bank account read/write operations. Implementation Guidance: Message Structure: struct msg_packet { unsigned short cmd; // command, e.g., HELLO | HELLO_ACK | REQUEST | REPLY (HELLO & HELLO_ACK are additional command for debugging purposes) unsigned short seq; // sequence number of avoid duplicates unsigned int hostid; // this is optional because you can obtain the host (sender) information from the ip header, we add this fied for the convenience. unsigned short vector_time[5]; // support upto to 5 hosts }; : You may artificially give an ID to each host. For example: 0 1 turing13

...operations from all computers. The application program must invoke the distributed mutual exclusion primitive before and after the actually bank account read/write operations. Implementation Guidance: 1. Message Structure: struct msg_packet { unsigned short cmd; // command, e.g., HELLO | HELLO_ACK | REQUEST | REPLY (HELLO & HELLO_ACK are additional command for debugging purposes) unsigned short seq; // sequence number of avoid duplicates unsigned int hostid; // this is optional because you can obtain the host (sender) information from the ip header, we add this fied for the convenience. unsigned short vector_time[5]; // support upto to 5 hosts }; 2. : You may artificially give an ID to each host. For example: 0 1 turing13

Data Preparation: Ensure you have the necessary data, including RNA-seq raw reads (usually in FASTQ format), a reference genome, and an annotation file (often in GTF or GFF format) that defines genomic features. Alignment: Align your RNA-seq reads to the reference genome using a suitable alignment tool like HISAT2, STAR, or Bowtie2. This step generates alignment files in formats like BAM or SAM. Feature Counting Tool: Use a feature counting tool to quantify the number of reads that align to genomic features. Popular tools include Subread's featureCounts, HTSeq, or the count function in R packages like GenomicAlignments or DESeq2. Specify Annotation File: Provide the annotation file (GTF or GFF) to the feature counting tool. This file defines the genomic features you w...

Hello! I am looking for help to learn how to create a clustered heatmap with my bulk sequencing data, using R. Specifically, I want to highlight certain genes or proteins that might be represented among the data. This will involve finding patterns and trends that might be useful in understanding various aspects of my data. This will require creating a visualization of the data that is both easy to read and visually stunning. If you have knowledge of R and are experienced in creating heatmaps, I would love to hear from you! Only want to depict top 100 up and downregulsted genes but I'm struggling.

I need help building 6 gene trees. I need 6 clean, clear, phylogenetic trees built for all 6 genes. The phylogenetic relationship in the end trees should be clear and make sense. For each tree, I need notes about the tree production like removal of specific sequences, branches, alignments, trimming etc. so the data is reproducible. - here is a zip of sequen...that's alright. They just need to have the stop codons (aka. the full protein) - RAxML (Randomized Axelerated Maximum Likelihood) is a popular program for phylogenetic analysis of large datasets under maximum likelihood. Its major strength is a fast maximum likelihood tree search algorithm that returns trees with good likelihood scores. - I use Linux and biopython interchangeably Thank you.

I need help building 6 gene trees. I need 6 clean, clear, phylogenetic trees built for all 6 genes. The phylogenetic relationship in the end trees should be clear and make sense. For each tree, I need notes about the tree production like removal of specific sequences, branches, alignments, trimming etc. so the data is reproducible. - here is a zip of sequence...that's alright. They just need to have the stop codons (aka. the full protein) - RAxML (Randomized Axelerated Maximum Likelihood) is a popular program for phylogenetic analysis of large datasets under maximum likelihood. Its major strength is a fast maximum likelihood tree search algorithm that returns trees with good likelihood scores. - I use Linux and biopython interchangeably Thank you.

NGS_Project_on_Saccharomyces_cerevisiae Objective: Gene expression analysis Preferred method for data analysis: RNA-Seq Preferred bioinformatics tools for data analysis: Bioconductor Skills and experience required: - Strong background in NGS data analysis - Proficiency in gene expression analysis using RNA-Seq - Experience with Bioconductor for data analysis - Familiarity with Saccharomyces cerevisiae genome - Ability to interpret and analyze gene expression data - Excellent problem-solving and critical thinking skills

I have sample RNA seq count table. The data normalized by different methode included FPKM. I need to convert this data to be normalized by CPM using gene length

...detailed proposal for the project, including a timeline and cost estimate. Additionally, the contractor should have a strong attention to detail and be able to ensure that the new surface meets all safety regulations. If you have the necessary skills and experience, please submit a proposal for my project. Sec.644(g)(3) of the Head Start Act applies the Davis-Bacon and Related Acts (40USC276aet seq) to contractors and subcontractors engaged in covered construction and renovation activities in excess of $2,000 on facilities used to carry out Head Start activities. Covered Davis-Bacon Act activities are construction, alteration, or repair (including painting or decorating). If Head Start funds in excess of $2,000 are used toward the cost of covered activities, the Davis-Bacon Act ...

Hi, I need a freelancer who can work on a project that involves analyzing single cell RNA-sequence data with Python. On 2 datasets, one labeled and unlabeled, along with writing of a report of the observations/results. Specifically, I need to do the following on the two datasets: Kmeans-> PCA, K-PCA, T-SNE, UMAP, ISOMAP, LLE GMM-> PCA, K-PCA, T-SNE, UMAP, ISOMAP, LLE labeled dataset: Evaluation: normalized mutual information (NMI) and adjusted rand index (ARI) Unlabeled dataset: Silhouette coefficient Along with the code in Python, I need a report which writes the observations (results + paragraphs, comparing each results).

I am looking for a skilled developer to build a LSTM or seq 2 seq model for abstractive text summarization of NPTEL videos. The ideal candidate should be proficient in Python programming language. The output format for the summaries should be in text files. Key requirements for this project include: - Building a LSTM or seq 2 seq model for abstractive text summarization - Proficiency in Python programming language - Ability to output summaries in text files.

I am looking for a skilled developer to create a Chrome extension that can provide abstractive text summarization of NPTEL videos using transcript. The preferred model for this project is Seq2Seq. The ideal candidate should have experience in Python programming language. The desired level of summarization is long summary, which should be 6-10 sentences. Below are the key requirements for the project: - Develop a Chrome extension for abstractive text summarization of NPTEL videos using transcript - Use Seq2Seq model for summarization - Develop the extension using Python programming language - Provide long summary of 6-10 sentences - Ensure the extension is user-friendly and easy to use I am looking for a developer who can deliver quality work within a reasonable timeframe. If you have the...

Looking for a skilled developer to create a Chrome extension that will enhance user comprehension of NPTEL videos using abstractive text summarization. The extension should use LSTM or seq 2 seq model to summarize video transcripts and provide key points. The project should be developed using Python and offer basic customization options. Ideal candidates will have experience in natural language processing, deep learning, and Chrome extension development.

I would like to help updating a macro.

I am looking for a talented freelancer to help me develop a Chrome extension for text summarization of NPTEL videos using transcripts using an LSTM or sequence to sequence model. The approach I am looking for is an abstractive summary, written in Python, and using existing NPTEL videos for testing and training the model. This extension will help users quickly watch the summary of any video rather than have to watch the whole video. Please let me know if you’re the right freelancer for this project!

Perform a functional enrichment analysis on a set of differentially expressed S. cerevisiae genes, between two conditions or between two different strains. To do that you will need to identify a suitable dataset consisting of libraries of paired-end RNA-seq reads (fastq files), one for each condition/strain. How will you find a dataset? You will either 1) start with a literature search, find a relevant paper and then download the paper's data, or 2) start with a search in EBI-ENA or NCBI-SRA or GEO, find a suitable dataset and then track down the study from which it came. In both cases, you should know what the study is, what its goal and motivation was and what conditions/strains are being compared and why. Once you've found your data, in the beginning, you should have ...

My max budget is $50 and should be completed in 2 days. All required files are attached. I will provide 2 .gbf and 2 .gff files for reference. ,,,example2.gff. I have written a python script with input file , I got output of (its not complete correct, this output should be exactly match with ) Task is to create a new python script or modify file to generate correct output. Task should take multiple .gbf files as input and generate corresponding .gff files.

..."rslt":"succ","seq":7716,"cause":0,"rmn":1,"dType":"hex","data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gmac":"94A408B0482C"} You have been assigned to solve parsing of the above json "data" by using the docum...

...mobile, they will select which profile to activate App landing page once user signup/signin and choose profile On the landing/home page 1. Show the user multiple sections, one for each subcategory. 2. In each section show the summary of "content for the day". For example, if the profile has already seen content till seq no 46 till now, show them the content summary for seq no 47. 3. Once the profile user clicks on a summary for the day, show them cards for that seq number, one at a time with an option to go prev/next card within the same content. 4. Sometimes user can also choose to select the content of the next day also on the same day(like fast forward in case they have more time and they want to read the content of next days also) 5. Pro...

...for a weightType of 0-9 If weightType = -1 it prints an integer telling you what file is available at this date/time. weightType inFile To submit next best distance The format of the inFile file will be exactly 2 ASCII lines of text mydist myList For example if the list was seq -s " " 1 484 then the ASCI file would look as 529960 [1, 2, 3, 4, 5, 6, 7, 8, 9, 10, 11, 12, 13, 14, 15, 16, 17, 18, 19, 20, 21, 22, 23, 24, 25, 26, 27, 28, 29, 30, 31, 32, 33, 34, 35, 36, 37, 38, 39, 40, 41, 42, 43, 44, 45, 46, 47, 48, 49, 50, 51, 52, 53, 54, 55, 56, 57, 58, 59, 60, 61, 62, 63, 64, 65, 66, 67, 68, 69, 70, 71, 72, 73, 74, 75, 76, 77, 78, 79, 80, 81, 82, 83, 84, 85, 86, 87, 88, 89

...for a weightType of 0-9 If weightType = -1 it prints an integer telling you what file is available at this date/time. weightType inFile To submit next best distance The format of the inFile file will be exactly 2 ASCII lines of text mydist myList For example if the list was seq -s " " 1 484 then the ASCI file would look as 529960 [1, 2, 3, 4, 5, 6, 7, 8, 9, 10, 11, 12, 13, 14, 15, 16, 17, 18, 19, 20, 21, 22, 23, 24, 25, 26, 27, 28, 29, 30, 31, 32, 33, 34, 35, 36, 37, 38, 39, 40, 41, 42, 43, 44, 45, 46, 47, 48, 49, 50, 51, 52, 53, 54, 55, 56, 57, 58, 59, 60, 61, 62, 63, 64, 65, 66, 67, 68, 69, 70, 71, 72, 73, 74, 75, 76, 77, 78, 79, 80, 81, 82, 83, 84, 85, 86, 87, 88, 89

Your prompt for this first reading response: Using the sources from the week eight through week ten lectures, explore the connection between punk and hip-hop and what themes or messages unite the two genres. Your response will need to use at least three sources. - -Daugherty, Rebecca. “The Spirit of ‘77 - Punk a...unite the two genres. Your response will need to use at least three sources. - -Daugherty, Rebecca. “The Spirit of ‘77 - Punk and the Girl Revolution.” Women and Music, University of Nebraska Press, 2002. Gale Academic OneFile, (Links to an external site.). -

I have analyzed data for bacterial rna seq. The bacteria were treated with specific compounds. the RNA seq data compares the treated and untreated bacterial samples. need someone to interpret the data with reference to the metabolic pathways, and the significant changes that happened due to the treatment.

Need PHP Dashboard using Stimulsoft Dashboard product. I need it to read data from a SQL Server table that contains a Seq number, ForDate and ForStores (which is a comma separated column like 1,2,3,4,5). I need the php script to look at the Seq number that is being passed via URL, read the record that has the date and store numbers in it, and then produce the dashboards (one for each store) and export to a pdf file. The dashboard datasources will be two SQL Server stored procedures, one which returns one row and it's data is put into the dashboard, and the other Stored Procedure returns 31 rows which needs to create a graph in the dashboard. This is basically a proof of concept, so if this can be done, I am planning on changing for my exact needs. You must h...

We need a concept artist to visualise 6 different angry realistic planets (with abstract faces in 3D) . Would like the treatment to be serious, artistic and cinematic. References: Star trek Beyond title seq.

Looking for a logo to be designed for a horizontal directional drilling company, logo should incorporate a direction drilling rig and/or directional drill bits and/or southern cross and/or south east queensland state border. Company name is 'SEQ Drilling'. All file types must be provided with winning entry. Thanks,

...Generate access and refresh tokens 3. Renew access and refresh tokens 4. Log out 5. Save the tokens to a file 6. Load the tokens from a file 7. Log in using the tokens 8. Retrieve the cash balance and margin buying power 9. Retrieve the stock owned in the account 10. Retrieve a list of working orders store them in an array 11. Place a buy order 12. Place a sell order 13. Place a 1st triggers seq order comprising a buy order followed by a sell order 14.. Cancel the buy order from 11 15. Cancel all open orders 16. Get the current market price of the stock. 17.. retrieve historical data for the stock for the past week 18. Log out with the tokens. The entire sequence should be linear. You must use the existing project. The finished project must compile and run on th...

...[[ acpid arch ash awk basename blockdev busybox cat chmod chroot chvt clear cmp cp cut date deallocut deluser devmen df du dumpkmap echo egrep emv expr false fbset fgrep find fold fsrtim grep gunzip gzip hostname hwclock ifconfig ip kill In loadfont loankmap Is Izop mkdir mkfifo mknod mkswap mktemp modinfo more mount mv nuke openvt pidof printf ps pwd readlink reboot reset rm rmdir run-init sed seq setkeycodes sh sleep sort stat static-sh stty swich_root sync tail tee test touch tr true tty umuont uname uniq wc wget which yes ...

Analysis of human gene expression profiling RNA-Seq dataset using edgeR package (using R language)

Hi Mohamad B., I noticed your profile and would like to offer you my project. I need to create VCF file from my single FASTQ file with RNA-seq. Thanks in advance!

need 2 logos designed for new businesses. Attached is a previous one that we really liked and would like to use a similar colour palette. First business is SEQ Indigenous Language Centre - (SEQ = South East Queensland) the business researches existing and endangered indiegnous languages and helps communities to restore these. Second business is Indigenous Strategy Development - assists government and private organisations with policy and strategy regarding incorporation of Indigenous perspectives, local issues and history.

I have to design a HASS excursion suitable for Year 6 students in my area (SEQ). I have submitted this assignment already but need to resubmit it and make sure its a different lesson, not just an adjustment of my old one. I have feedback available on my old assignment that might prove useful. i am just so busy at the moment and only have until thursday to finish it and dont know how i'm going to.

I'm medical doctor , I can write medical article writing , making MCQ and SEQ , give consultation about medical diseases.

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...Genome analysis Single, integrated platform solution. 2 U1 (user-interface) solution with no command-line inputs. 3 Support raw data from the following sequencing platforms: Illumina, 454 (Roche), ABl, Ion Torrent, Pac Bio with multiple library layout formats and support for VM barcodingOxford Nanopore. 4 Capable of supporting the following workflows and applications: RA-Seq DNA-Seq-ChIP-Seq Methyl-Seq MeDIP-Seq Small RNA-Seq Multi-Omics analysis>support for simultaneous analysis of multiple workflows. 5. Provide for U1-hased parameter customizability for all algorithms. 6 Capable of handling: Short reads, long reads, Arbitrary gaps/mis-matches, single-end reads, paired- end reads 7 Support local realignment, split-read alignment (for detecti...

I am trying to setup portforwarding on this device. I am trying to access a machine on the LAN side on port 8448. I see the access attempt on the EdgeRouter but I can't access the device on port 8448. Below is a capture. IP 290.41.93.138.52210 > 192.168.1.29.8448: Flags [S], seq 748460361, win 65535, options [mss 1460,nop,wscale 6,nop,nop,TS val 1700375722 ecr 0,sackOK,eol], length 0

I’m looking for a design for my business logo. I would like a simple and would be easy to remember. My business will be doing electrical projects, signage and events. The name of the business is " SEQ ENERGY" Open to ideas, like different type of fonts, colors and unique business initial or item that would relate to the business. ( no light bulbs please)

I want the extraction of differentially expressed genes of RNA Seq data

...event, queuing job for execution jan 10 09:00:44 charlie charon[41764]: 01[JOB] no events, waiting jan 10 09:00:44 charlie charon[41764]: 14[MGR] checkout IKEv1 SA with SPIs 56f5dd3c24367cfe_i 3f177bf28dcc138e_r jan 10 09:00:44 charlie charon[41764]: 14[MGR] IKE_SA VPN-DetranRJ[1] successfully checked out jan 10 09:00:44 charlie charon[41764]: 14[IKE] sending retransmit 1 of request message ID 0, seq 3 jan 10 09:00:44 charlie charon[41764]: 14[NET] sending packet: from 1.1.1.1[500] to 2.2.2.2[500] (108 bytes) jan 10 09:00:44 charlie charon[41764]: 14[MGR] checkin IKE_SA VPN-DetranRJ[1] jan 10 09:00:44 charlie charon[41764]: 14[MGR] checkin of IKE_SA successful jan 10 09:00:44 charlie charon[41764]: 04[NET] sending packet: from 1.1.1.1[500] to 2.2.2.2[500] jan 10 09:00:44 charlie ...

Short python report using ChiP-seq and creating a script that sorts information. Will pay €250 + depending on quality

coding explanatory variables in linear models RNA-seq biology RNA-seq data and accessing clinical (phenotype) variables

It involves big data, single cell RNA sequencing

I am looking for someone with knowledge in computational biology. Who can do literature review fo analysing RNA seq data methods.

Looking to rewrite the following code in a proper way, using promises instead of "async: fa...value){ $("#consign_item_body").append("<tr><td>Document No : "+value+"</td></tr>"); $.ajax({ url: "php/", data: { docno: value}, dataType: "JSON", async: false, success: function(item) { $("#consign_item_body").append("<tr><td>"+item[k]['few_details_here']+"</td></tr>"); $.ajax({ url: "php/", data: { itemdoc:value,itemseq:item[k]['SEQ'],itemcode:item[k]['PRODCODE']}, dataType: "JSON", async: false, success: function(batch) { $.each(batch,function(a){ ...

Hello freelancers. The purpose of this project is to explore the changes in the host ( mouse) mammary tissue in a human breast xenograft during tumor progression and after experimental treatment, RNA seq. was performed. Gene expression reads of mouse for three pathways, Necrosis, Apoptosis and Wound healing were tabulated. I need interpretation of this data and comparison with known data. A small sample of the data is provided. Explanation: My project is to understand what happens to the host cells when a tumor is implanted in their body.I had attached a screen shot of the data which lists 6 mouse( host) genes related to necrosis( Human breast cancer xenograft) .Each with 4 reads. The first column has the name of the gene and next 4 columns are the reads of the gene expression, th...

The project involves developing a RNA sequence analysis pipeline from command line(using bash). It involves performing quality control, mapping the given sequence with the reference genome(reference genome and annotation provided),differential expression,down stream analysis followed by RNA-seq varient calling.