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Recent Votes
- DEA.R: Command line script for differential expression analysis with R packages (DESeq2/edgeR/limma-voom)
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Recent Replies
-
A: Future direction of Gene Set Enrichment Analysis by
lmanohara99 • 20
Can we take a machine learning based approach for solving the same problem which has been solved ...
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C: RNA-seq cBioPortal differential gene expression by
Bioinfo • 0
Dear Tris, As mentioned above I have downloaded the TCGA data from cBioPortal. I would like to k...
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A: Presenting differential expression data containing infinite log2(Fold Change)s by
Satya • 730
A pseudocount of 1 can be added to the raw count matrix. FPKMs and TPMs and log changes can be ca...
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C: Presenting differential expression data containing infinite log2(Fold Change)s by
Santosh Anand • 2.8k
Which tool did you use for differential analysis? The chances are very high that the final output...
-
C: COSMIC vcf file compatibility for Mutect2 by
benformatics • 120
If anyone wants to do this in R, it a lot easier: library(VariantAnnotation) ## im...
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C: ABySS run problems by
st.ph.n • 1.2k
You can also post your question to the abyss [user group][1]. [1]: https://groups.google.com/...
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C: what should a SAM/BAM record contain when there are no quality scores by
John Marshall • 1.0k
There's also text about this in §1.4 talking specifically about SAM's QUAL: “This field can be a ...
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C: Duplicates on Illumina by
Lina F • 100
I used the following code: seqtk mergepe R1.fastq.gz R2.fastq.gz > merged.fastq cat m...
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C: readcufflinks shows error in R cummeRbund Package by
Ram ♦ 12k
It is definitely suspicious. A warning has been issued to @Mask. I will also keep an eye out for ...
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A: Differences in FPKM values for same sample in multiple comparisons by
jammydodger123456 • 0
Thank you Kristoffer and Satya
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C: what should a SAM/BAM record contain when there are no quality scores by
John Marshall • 1.0k
The BAM “run of 0xFF values” is thus so that the offset within the record to the auxiliary data i...
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C: Getting error in running GATK (GenomeAnalysisTK-3.7)? by
WouterDeCoster ♦ 20k
Well, then you can also tell "your colleagues" to remove those unnecessary upvotes. You are not h...
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