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Travis • 2.8k
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written 3.9 years ago by
yueqiong.ni • 30
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Recent Replies
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A: Proper design for DESeq2 and other RNAseq general questions by
h.mon ♦ 19k
From the description of your experiment, I think your design should be only `tissue`, why are you...
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C: Visualizing body organs in R by
lokraj2003 • 30
Thanks Garan for the link.
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C: Visualizing body organs in R by
lokraj2003 • 30
I saw some posts about gganatogram on Twitter. That package is really cool. I wish they could ad...
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A: Performing differential expression study on isoforms by
Charles Warden ♦ 5.2k
To be honest, I've typically parsed the counts from [Salmon][1] / [Sailfish][2] directly (when I ...
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A: Difference between DESEq2 and ANCOM for estimating biomarkers (which is preferrr by
Charles Warden ♦ 5.2k
I haven't personally tested [ANCOM][1], but I've tested [MetagenomeSeq][2]. I think it would be ...
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A: Filtering in RNA-Seq to get Differentially Expressed lncRNA by
Charles Warden ♦ 5.2k
If you use different annotation sources, separate quantification can avoid issues with ambiguous ...
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A: Single Cell RNAseq Imputation in Seurat by
Charles Warden ♦ 5.2k
I would typically filter out cells with a low coverage of genes (either without any reads, or gen...
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A: In RNA Seq, How does the AT content help us to know if the data is contaminated by
Charles Warden ♦ 5.2k
If it is a polyA enriched protocol, you might have had low RNA input (or an extra high number of ...
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C: EMBOSS transeq translate to protein with 3 letter code by
h.mon ♦ 19k
Not quite right, the general pattern is you have to insert one initial space, then two spaces bet...
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Ram ♦ 17k
Have you tried searching the site? You're looking for [biomaRt][1]. I'm not going to give you th...
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h.mon ♦ 19k
> The reference-genome assemblies were obtained wit: GATK, samtools mpileup, bcftools, vcfutil...
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Ram ♦ 17k
Please use the formatting bar (especially the `code` option) to present your post better. I've do...
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