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systempiper
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3
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How to export Slurm to my PATH in Ubuntu 20.04
systemPipeRdata
systempipeR
3.9 years ago • updated 3.8 years ago
appropiate
• 0
0
votes
0
replies
860
views
Subdirectories created by systemPipeR
systemPipeRdata
systemPipeR
3.9 years ago
appropiate
• 0
0
votes
1
reply
1.4k
views
how to analysis chip-seq data
systemPipeR
updated 4.1 years ago by
dcassol
▴ 100 • written 4.1 years ago by
Bioinformatics
▴ 30
2
votes
2
replies
4.3k
views
DiffBind installation fails: Error: package ‘BiocGenerics’ 0.34.0 is loaded, but >= 0.36.0 is required by ‘IRanges’
systemPipeR
Bioconductor
DiffBind
BiocGenerics
updated 5.0 years ago by
Martin Morgan
25k • written 5.0 years ago by
tina
• 0
0
votes
0
replies
1.1k
views
Finding longest non overlapping open reading frames
predORF
systemPipeR
ORF
prediction
6.8 years ago
Mr.RB
▴ 20
14
votes
10
replies
4.9k
views
Error when trying to preprocessReads() : "Error: logical subscript contains NAs"
systempiper
7.1 years ago
Deleted
▴ 70
0
votes
2
replies
1.7k
views
runCommandline error - bash: module: command not found
runCommandline
systemPipeR
bash
7.3 years ago
rj.innet
• 0
0
votes
2
replies
1.7k
views
Problem running (loading) systemPipeR package after downloading
systemPipeR
rnaseq
7.4 years ago
rj.innet
• 0
0
votes
2
replies
1.1k
views
systemARGS not found
systempiper
7.4 years ago
kimberly.dickson
• 0
0
votes
3
replies
2.4k
views
error: NA counts not permitted
systempiper
edger
rna-seq
updated 7.8 years ago by
Aaron Lun
★ 29k • written 7.8 years ago by
clarisbaby
• 0
0
votes
1
reply
1.7k
views
What R version does systemPipeR runs
systempiper
R
batchjobs
updated 8.3 years ago by
Thomas Girke
★ 1.7k • written 8.3 years ago by
tarun2
• 0
0
votes
2
replies
1.6k
views
Why all of the logFC are NA in my edgeDF2
R
edger
systemPipeR
8.9 years ago
xuertowong
• 0
2
votes
3
replies
2.8k
views
SystemPipeR: alignments with ambiguous pairing were dumped.
R
rnaseq
tophat
summarizeoverlaps
systempiper
updated 9.2 years ago by
Thomas Girke
★ 1.7k • written 9.2 years ago by
abass.conteh
• 0
1
vote
2
replies
2.5k
views
Problem with systemPipeR package: run_edgeR or run_DESeq2 functions don't work
systempiper
run_edgeR
updated 9.3 years ago by
Thomas Girke
★ 1.7k • written 9.3 years ago by
alexandr.gopanenko
▴ 50
0
votes
7
replies
4.8k
views
DESeq2 LRT Error: less than one degree of freedom, perhaps full and reduced models are not in the correct order
deseq2
systempiper
Tutorial
9.6 years ago
musa
▴ 10
0
votes
4
replies
2.0k
views
SystemPipeR GO term enrichment analysis - filterDEG
systempiper
go term
9.6 years ago
A Gossner
▴ 50
0
votes
2
replies
2.2k
views
error when using seeFastqPlot
systempiper
seeFastqPlot
software error
ggplot2
geom_histogram
updated 10.0 years ago by
Thomas Girke
★ 1.7k • written 10.0 years ago by
setarosd
• 0
0
votes
4
replies
2.1k
views
systemPipeR with DESeq2
deseq2
systemPipeR
11.2 years ago
Ugo Borello
▴ 340
18 results • Page
1 of 1
Recent ...
Replies
Answer: When to use edgeR or limma
by
Gordon Smyth
53k
The short answer is that we generally prefer edgeR for applications with lots of small counts and limma for complex designs with random eff…
Comment: limpa-blank normalization and Spectronaut's PTM stoichiometry
by
Gordon Smyth
53k
I updated the above answer today.
Answer: When to use edgeR or limma
by
James W. MacDonald
68k
I would use edgeR's quasi-likelihood model for any analysis with a smaller number of observations (like 3 vs 3 or similar), but if you have…
Answer: limpa-blank normalization and Spectronaut's PTM stoichiometry
by
Gordon Smyth
53k
The short answer is that limpa reads standard feature-level intensities from Spectronaut or other quantifications tools. limpa is designed …
Comment: Question about the filterByExpr function inputs in edgeR
by
mohammedtoufiq91
▴ 10
@gordonsmyth Noted, thank you very much.
Votes
A: deseq2 - paired samples in 2 sequencing types with very different library sizes
Comment: Question about the filterByExpr function inputs in edgeR
Answer: Question about the filterByExpr function inputs in edgeR
Answer: Question about the filterByExpr function inputs in edgeR
A: DESeq2: What is the unit of DESeq2 normalized read count (VST)? Is it tag per mi
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