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SRA
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6
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Tutorial:
Orchestrating a small, parallel, RNA-seq pre-processing workflow using R
rnaseq
biocparallel
workflows
sra
Tutorial
8.8 years ago
Sean Davis
21k
2
votes
1
reply
1.3k
views
Uniting SRA Data into a single file
R
fastq
SRA
sradb
updated 7.4 years ago by
Martin Morgan
25k • written 7.4 years ago by
grecoandreauni
• 0
0
votes
0
replies
1.4k
views
Search SRA based on BioSample Attributes
ncbi
sra
search
8.2 years ago
massacomgrao
• 0
0
votes
3
replies
3.2k
views
download SRR*.lite.sra files using fastq-dump command
sra
chipseqDB
fastq-dump
.lite.sra
updated 7.6 years ago by
James W. MacDonald
65k • written 7.6 years ago by
xhe764
• 0
0
votes
0
replies
903
views
Problem for Splitting reverse and forward reading in my RNA-seq
RNA-seq
SRA
reverse reads
forward reads
5.8 years ago
modarzi
▴ 10
0
votes
1
reply
1.0k
views
Creating a DESeqDataSet from a RangedSummarizedExperiment - where is the design parameter in RangedSummarizedExperiment
SRA
DESeq2
2.9 years ago
Serge
• 0
6 results • Page
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Recent ...
Replies
Comment: FilterByExpr low counts with small sample size
by
Gordon Smyth
50k
As always, it helps to see code. Are you running `voom` or `voomLmFit`? Did you run `normLibSizes()` in edgeR prior to `voom`? Are you star…
Comment: Batch correction and repeated measures
by
Gordon Smyth
50k
In your code, it was clear that `expr.mat` was a matrix rather than a DGEList, so it has to be a count matrix. If you have a DGEList object…
Comment: Methylation Analysis experiment design using Limma
by
Gordon Smyth
50k
I don't analyse methylation arrays so cannot advise on specific limma settings for that type of data. Please follow the advice of the methy…
Comment: Light difference when using coef vs omit a group when compare 3 groups.
by
Chris
• 0
Hi Gordon, thank you so much for further guidance! I discussed this issue with psychology doctor who treat Alzheimer patients and they don'…
Comment: Single-Cell Data Simulation from Bulk RNA-seq
by
wichaidi
• 0
Hi - I am wondering what you decided to do. I am currently in a similar condition where I need to create a toy scRNAseq data from bulk.
Votes
Answer: How many of my genes from my gene list are in each KEGG pathway?
Comment: Light difference when using coef vs omit a group when compare 3 groups.
DESeq2 variance transformation error and plot dispersion Estimate
A: DESeq2 variance transformation error and plot dispersion Estimate
ensembl to hgnc symbols creates duplicates
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