Biostar C

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444

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htslib vcf c

3 months ago by Pierre Lindenbaum 164k

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936

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htslib samtools bgzip c

15 months ago by Oleksii • 0

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765

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fastq multithread htslib C

21 months ago by Pierre Lindenbaum 164k

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679

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C compile

updated 2.3 years ago by GenoMax 146k • written 2.3 years ago by alruta13 • 0

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6.0k

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7 follow

tabix c

updated 2.3 years ago by loopidle • 0 • written 13.0 years ago by tflutre ▴ 580

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947

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C compile

2.3 years ago by alruta13 • 0

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1.5k

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dlib DRACO C

2.3 years ago by alruta13 • 0

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1.1k

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C htslib

2.8 years ago by abcoxyzide ▴ 20

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1.2k

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soapaligner c linux

updated 3.4 years ago by Ram 44k • written 3.4 years ago by lafced • 0

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6.4k

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6 follow

c programming

updated 3.5 years ago by Ram 44k • written 12.7 years ago by User 4000 ▴ 50

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1.1k

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debug development vg c

updated 3.9 years ago by Pierre Lindenbaum 164k • written 3.9 years ago by alfio.caprino • 0

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1.8k

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c genome gene

updated 3.9 years ago by Alex Reynolds 35k • written 3.9 years ago by banerjeesourya1 • 0

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1.6k

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htslib C development

updated 3.9 years ago by Pierre Lindenbaum 164k • written 3.9 years ago by ucbtsm8 ▴ 20

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2.0k

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cpp python c

updated 17 months ago by Ram 44k • written 4.1 years ago by info ▴ 80

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2.3k

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samtools htslib vcf cpp c

updated 17 months ago by Ram 44k • written 4.4 years ago by enho ▴ 40

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1.8k

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python bcftools c vcf

4.4 years ago by curious ▴ 810

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1.1k

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samtools api htslib Cpp c

updated 17 months ago by Ram 44k • written 4.5 years ago by Aref.Ariyapour • 0

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3.8k

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6 follow

cpp htslib c

updated 17 months ago by Ram 44k • written 7.9 years ago by QVINTVS_FABIVS_MAXIMVS ★ 2.6k

143

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32k

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20 follow

c c

updated 5.6 years ago by chernouhov sergey ▴ 50 • written 14.4 years ago by User 59 13k

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3.7k

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htslib conda c

updated 6.0 years ago by John Marshall 3.1k • written 6.0 years ago by Click downvote ▴ 720

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2.6k

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cpp bam c

updated 17 months ago by Ram 44k • written 6.0 years ago by Click downvote ▴ 720

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1.5k

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autotools configure samtools htslib c

updated 6.1 years ago by John Marshall 3.1k • written 6.1 years ago by Pierre Lindenbaum 164k

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2.6k

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C awk shell python

updated 6.2 years ago by Carlo Yague 8.9k • written 6.2 years ago by vinayjrao ▴ 250

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11k

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10 follow

next-gen-sequencing fastq c

updated 11 months ago by Ram 44k • written 14.6 years ago by Jeremy Leipzig 22k

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1.3k

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Cpp Java Perl Linux C

updated 17 months ago by Ram 44k • written 6.4 years ago by Recruit ▴ 230

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1.8k

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GWAS C EMMAX Server Cluster

6.5 years ago by michael.nagle ▴ 100

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1.1k

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Java C Cpp Perl Linux

updated 17 months ago by Ram 44k • written 6.5 years ago by Recruit ▴ 230

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5.4k

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fastq c

updated 6.8 years ago by kloetzl ★ 1.1k • written 6.8 years ago by brs1111 ▴ 10

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1.8k

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samblaster c cpp spliced-read

updated 17 months ago by Ram 44k • written 6.8 years ago by Pierre Lindenbaum 164k

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1.6k

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C Cpp Java

updated 17 months ago by Ram 44k • written 7.1 years ago by Recruit ▴ 230

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2.3k

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Perl Python C Cpp

updated 17 months ago by Ram 44k • written 7.2 years ago by Recruit ▴ 230

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2.4k

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Python C Cpp Oracle

updated 17 months ago by Ram 44k • written 7.3 years ago by Recruit ▴ 230

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6.7k

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bcftools software error C samtools OSX

7.5 years ago by abdulbenissa ▴ 10

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2.2k

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Cpp oracle Perl C

updated 19 months ago by Ram 44k • written 7.7 years ago by Recruit ▴ 230

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3.7k

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pdb C

updated 18 months ago by Ram 44k • written 7.7 years ago by souparnoa91 ▴ 20

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4.3k

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c pssm

updated 7.8 years ago by Biostar 20 • written 12.4 years ago by glocke01 ▴ 190

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2.4k

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cpp c RNA-Seq kissplice SNP

updated 17 months ago by Ram 44k • written 8.3 years ago by yoyofangliu • 0

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2.1k

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proetomics CRISPR R C

updated 19 months ago by Ram 44k • written 8.3 years ago by EMBL Recruitment ▴ 30

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1.7k

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Cpp next-gen C

updated 19 months ago by Ram 44k • written 8.3 years ago by dan • 0

votes

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32k

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8 follow

dna c

updated 2.3 years ago by Ram 44k • written 8.9 years ago by Arindam Ghosh ▴ 530

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1.7k

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GCskew C Khi2

updated 2.2 years ago by Ram 44k • written 8.9 years ago by nathaydania • 0

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2.2k

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swift objective-c c

updated 2.2 years ago by Ram 44k • written 8.9 years ago by vytarasov ▴ 180

votes

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7.3k

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samtools htslib C API

updated 3.4 years ago by Ram 44k • written 9.3 years ago by QVINTVS_FABIVS_MAXIMVS ★ 2.6k

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5.1k

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statistics C

updated 23 months ago by Ram 44k • written 9.3 years ago by Kamil ★ 2.3k

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1.6k

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blast C

updated 9.4 years ago by h.mon 35k • written 9.4 years ago by felipesulser • 0

votes

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3.7k

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sequence visualization c windows

updated 9.6 years ago by Biostar 20 • written 13.6 years ago by Mark Anthony Gibbins ▴ 130

votes

replies

3.7k

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python hmm C java

updated 2.7 years ago by Ram 44k • written 9.9 years ago by Dave ▴ 80

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3.1k

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C sequence kseq.h

updated 3.0 years ago by Ram 44k • written 10.3 years ago by madhurima.das ▴ 10

votes

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4.4k

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samtools tabix c

updated 10.3 years ago by Biostar 20 • written 12.1 years ago by FGV ▴ 170

votes

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2.3k

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samtools c bam

updated 3.0 years ago by Ram 44k • written 10.4 years ago by kettleg ▴ 30

50 results • Page 1 of 1

Recent Votes

Comment: Finding Differential Phosphosites in TMT Phosphoproteomics Data

Answer: Compare Two Sigle-cell Sample for Differentially Expressed Genes (DEGs). How?

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Answer: Compare Two Sigle-cell Sample for Differentially Expressed Genes (DEGs). How? by ATpoint 85k

> But How could I know if the difference comes from sample instead of sequencing runs or cohort-driven batch effect? You cannot. It's pe…

Comment: Comparing GSEA mutant data to wild type by conmul • 0

Sorry that it was unclear in the post. The data is all CRISPR gene effect scores from DepMap. The 'significant genes' as mentioned in the p…

Comment: How to determine whether it is 10x data by king • 0

Thank you for your answer, it's very inspiring.

Comment: Inquiry about depth of coverage and copy number variation by Chen • 0

Thanks Pierre, I was actually thinking about the duplicate PCR reads and didn't explain it properly. I have found a post mentioning that qu…

Comment: Can a read be aligned more than once? by GenoMax 146k

Yes a read can be aligned more than once (I don't specifically know about gam/gaf). It would be called a "multi-mapping" read. You could im…

Comment: Statistical test to be used for dataset by allingt • 0

The choice of test depends on the types of variables involved and the hypothesis you have. But most importantly on the question you want am…

Comment: dittoHeatmap; adding column labels on the heatmap by jared.andrews07 ★ 18k

I'd consider making a [block annotation](https://jokergoo.github.io/ComplexHeatmap-reference/book/heatmap-annotations.html#block-annotation…

Comment: Comparing GSEA mutant data to wild type by allingt • 0

What do you mean by "significant gene"? How did you perform GSEA and on how did you rank your genes for it? From guesswork I might initiall…

Comment: Genes of Interest in a Multi-Tissue Analysis by allingt • 0

The DESeq2 manual tells us that the object class of vst() output is a subclass of RangedSummarizedExperiment. I suspect the methods applica…

Comment: WGCNA: Why are my brown, yellow, and other modules not visible in the gene dendr by allingt • 0

Did you perform blockwise module detection by any chance? Are your results object's contents sorted in blocks?

Comment: Why does WGCNA use weighted correlation instead of Pearson correlation? by allingt • 0

The WGCNA implementation by Langfelder and Horvath provides various correlation methods to create the initial correlation matrix. I don't t…

Comment: dittoHeatmap; adding column labels on the heatmap by Varun Gupta ★ 1.3k

any idea, how can I display the labels Pre and POst on the top of the heatmap? I am looking at complexheatmap package as to how they displa…

Comment: How can I determine the p-value of genes within each identified module in WGCNA? by allingt • 0

What p-value do you mean? When and how did you calculate it?

Answer: What is a genomic range that would almost always get decent WGS coverage but is by i.sudbery 20k

What about some of the well known enhancer regions, the globin locus LCR? Likely to be highly sequenceable, and yet not on exome panels.

Answer: Using NumReads column of quants.genes.sf file to build DESeq2 input by i.sudbery 20k

One of the improvements that the using the `salmon` -> `tximport` -> `DESeq2` pipeline, over just a `counts`->`DESeq2` pipeline is the abil…

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