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systempipeR
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3
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1.3k
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How to export Slurm to my PATH in Ubuntu 20.04
systemPipeRdata
systempipeR
2.9 years ago
appropiate
• 0
0
votes
0
replies
673
views
Subdirectories created by systemPipeR
systemPipeRdata
systemPipeR
3.0 years ago
appropiate
• 0
0
votes
1
reply
1.1k
views
how to analysis chip-seq data
systemPipeR
updated 3.2 years ago by
dcassol
▴ 100 • written 3.2 years ago by
Bioinformatics
▴ 30
2
votes
2
replies
3.6k
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 4.0 years ago by
Martin Morgan
25k • written 4.0 years ago by
tina
• 0
0
votes
0
replies
881
views
Finding longest non overlapping open reading frames
predORF
systemPipeR
ORF
prediction
5.8 years ago
Mr.RB
▴ 20
14
votes
10
replies
4.3k
views
Error when trying to preprocessReads() : "Error: logical subscript contains NAs"
systempiper
6.2 years ago
Deleted
▴ 70
0
votes
2
replies
1.4k
views
runCommandline error - bash: module: command not found
runCommandline
systemPipeR
bash
6.4 years ago
rj.innet
• 0
0
votes
2
replies
1.4k
views
Problem running (loading) systemPipeR package after downloading
systemPipeR
rnaseq
6.5 years ago
rj.innet
• 0
0
votes
2
replies
856
views
systemARGS not found
systempiper
6.5 years ago
kimberly.dickson
• 0
0
votes
3
replies
2.1k
views
error: NA counts not permitted
systempiper
edger
rna-seq
updated 6.9 years ago by
Aaron Lun
★ 28k • written 6.9 years ago by
clarisbaby
• 0
0
votes
1
reply
1.4k
views
What R version does systemPipeR runs
systempiper
R
batchjobs
updated 7.4 years ago by
Thomas Girke
★ 1.7k • written 7.4 years ago by
tarun2
• 0
0
votes
2
replies
1.4k
views
Why all of the logFC are NA in my edgeDF2
R
edger
systemPipeR
7.9 years ago
xuertowong
• 0
2
votes
3
replies
2.4k
views
SystemPipeR: alignments with ambiguous pairing were dumped.
R
rnaseq
tophat
summarizeoverlaps
systempiper
updated 8.3 years ago by
Thomas Girke
★ 1.7k • written 8.3 years ago by
abass.conteh
• 0
1
vote
2
replies
2.2k
views
Problem with systemPipeR package: run_edgeR or run_DESeq2 functions don't work
systempiper
run_edgeR
updated 8.4 years ago by
Thomas Girke
★ 1.7k • written 8.4 years ago by
alexandr.gopanenko
▴ 50
0
votes
7
replies
4.3k
views
DESeq2 LRT Error: less than one degree of freedom, perhaps full and reduced models are not in the correct order
deseq2
systempiper
Tutorial
8.6 years ago
musa
▴ 10
0
votes
4
replies
1.6k
views
SystemPipeR GO term enrichment analysis - filterDEG
systempiper
go term
8.7 years ago
A Gossner
▴ 50
0
votes
2
replies
1.9k
views
error when using seeFastqPlot
systempiper
seeFastqPlot
software error
ggplot2
geom_histogram
updated 9.1 years ago by
Thomas Girke
★ 1.7k • written 9.1 years ago by
setarosd
• 0
0
votes
4
replies
1.8k
views
systemPipeR with DESeq2
deseq2
systemPipeR
10.3 years ago
Ugo Borello
▴ 340
18 results • Page
1 of 1
Recent ...
Replies
Answer: SingleR with multiple single cell references
by
Aaron Lun
★ 28k
> Is it necessary to piece together the individual steps manually (e.g. aggregateReference, trainSingleR, classifySingleR, combineRecompute…
Answer: Automatically install dependencies
by
ATpoint
★ 4.7k
The BiocManager, which is sort of an extended wrapper around `install.packages`, installs all R dependencies. If you see errors then this i…
Answer: To count or not to count multi-overlapping reads?
by
Gordon Smyth
52k
> How does it handle reads that map to a gene that is located in a region that also has another gene but on the alternate strand? Overlapp…
Comment: Weird p-values using DESeq2?
by
ATpoint
★ 4.7k
This does not look like normalized counts but raw counts. Consider using `counts(dds, normalized = TRUE)` or the output of `normTransform()…
Answer: Weird p-values using DESeq2?
by
Wolfgang Huber
★ 13k
Dear Ingrid, thank you for asking. Can you provide the input count matrix (you can "pseudonymize" the biological conditions and the gene n…
Votes
A: Fraction count for multi mapping reads; how to generate input file for Deseq2 fo
Comment: Weird p-values using DESeq2?
Comment: Overcoming confounding in batch effect correction
Answer: Store Matrix in DataFrame Cell
Answer: enrichGOgradient color change
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