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SRA
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Creating a DESeqDataSet from a RangedSummarizedExperiment - where is the design parameter in RangedSummarizedExperiment
SRA
DESeq2
4.0 years ago
Serge
• 0
0
votes
0
replies
1.2k
views
Problem for Splitting reverse and forward reading in my RNA-seq
RNA-seq
SRA
reverse reads
forward reads
6.9 years ago
modarzi
▴ 10
2
votes
1
reply
1.7k
views
Uniting SRA Data into a single file
R
fastq
SRA
sradb
updated 8.5 years ago by
Martin Morgan
25k • written 8.5 years ago by
grecoandreauni
• 0
0
votes
3
replies
4.3k
views
download SRR*.lite.sra files using fastq-dump command
sra
chipseqDB
fastq-dump
.lite.sra
updated 8.6 years ago by
James W. MacDonald
68k • written 8.6 years ago by
xhe764
• 0
0
votes
0
replies
1.7k
views
Search SRA based on BioSample Attributes
ncbi
sra
search
9.3 years ago
massacomgrao
• 0
6
votes
1
reply
4.3k
views
Tutorial:
Orchestrating a small, parallel, RNA-seq pre-processing workflow using R
rnaseq
biocparallel
workflows
sra
Tutorial
9.9 years ago
Sean Davis
21k
6 results • Page
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Comment: Can't install BioC packages (and manager) behind firewall
by
Marcel Ramos
700
Hi Delphine, Please make sure that your SSL certificates are up to date. Check with your system's administrator. Your browser may be usin…
Comment: Limma trend with limpa
by
Alejandro
• 0
Dear Gordon, Thank you very much!
Answer: DESeq2 from phyloseq error
by
asafpr
• 0
Apparently, I left this line: ```r setClassUnion("ExpData", c("matrix", "SummarizedExperiment")) ``` to patch the ExpData issue which was …
Comment: Discrepancies in normalised count data vs unnormalised
by
AMgroup
• 0
Thank you for your reply! There are some pretty big discrepancies in the total raw counts between samples: ![enter image description here…
Answer: Limma trend with limpa
by
Gordon Smyth
52k
Dear Alejandro, Thanks for your interest. No, one does not set `trend=TRUE` when running eBayes() after dpcDE(). The variance trends are …
Votes
Comment: Check removeBatchEffect effectiveness
Answer: Check removeBatchEffect effectiveness
A: what should I do with many zero counts from Salmon quantification
Comment: parameters of filterByExpr
GAlignments Cigar to GRanges
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