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systempipeR
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reset
3
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2
replies
1.5k
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How to export Slurm to my PATH in Ubuntu 20.04
systemPipeRdata
systempipeR
3.5 years ago
appropiate
• 0
0
votes
0
replies
794
views
Subdirectories created by systemPipeR
systemPipeRdata
systemPipeR
3.5 years ago
appropiate
• 0
0
votes
1
reply
1.3k
views
how to analysis chip-seq data
systemPipeR
updated 3.7 years ago by
dcassol
▴ 100 • written 3.7 years ago by
Bioinformatics
▴ 30
2
votes
2
replies
4.1k
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 4.6 years ago by
Martin Morgan
25k • written 4.6 years ago by
tina
• 0
0
votes
0
replies
997
views
Finding longest non overlapping open reading frames
predORF
systemPipeR
ORF
prediction
6.4 years ago
Mr.RB
▴ 20
14
votes
10
replies
4.7k
views
Error when trying to preprocessReads() : "Error: logical subscript contains NAs"
systempiper
6.8 years ago
Deleted
▴ 70
0
votes
2
replies
1.6k
views
runCommandline error - bash: module: command not found
runCommandline
systemPipeR
bash
7.0 years ago
rj.innet
• 0
0
votes
2
replies
1.6k
views
Problem running (loading) systemPipeR package after downloading
systemPipeR
rnaseq
7.0 years ago
rj.innet
• 0
0
votes
2
replies
988
views
systemARGS not found
systempiper
7.1 years ago
kimberly.dickson
• 0
0
votes
3
replies
2.3k
views
error: NA counts not permitted
systempiper
edger
rna-seq
updated 7.4 years ago by
Aaron Lun
★ 29k • written 7.4 years ago by
clarisbaby
• 0
0
votes
1
reply
1.6k
views
What R version does systemPipeR runs
systempiper
R
batchjobs
updated 8.0 years ago by
Thomas Girke
★ 1.7k • written 8.0 years ago by
tarun2
• 0
0
votes
2
replies
1.5k
views
Why all of the logFC are NA in my edgeDF2
R
edger
systemPipeR
8.5 years ago
xuertowong
• 0
2
votes
3
replies
2.6k
views
SystemPipeR: alignments with ambiguous pairing were dumped.
R
rnaseq
tophat
summarizeoverlaps
systempiper
updated 8.9 years ago by
Thomas Girke
★ 1.7k • written 8.9 years ago by
abass.conteh
• 0
1
vote
2
replies
2.4k
views
Problem with systemPipeR package: run_edgeR or run_DESeq2 functions don't work
systempiper
run_edgeR
updated 8.9 years ago by
Thomas Girke
★ 1.7k • written 8.9 years ago by
alexandr.gopanenko
▴ 50
0
votes
7
replies
4.6k
views
DESeq2 LRT Error: less than one degree of freedom, perhaps full and reduced models are not in the correct order
deseq2
systempiper
Tutorial
9.2 years ago
musa
▴ 10
0
votes
4
replies
1.8k
views
SystemPipeR GO term enrichment analysis - filterDEG
systempiper
go term
9.3 years ago
A Gossner
▴ 50
0
votes
2
replies
2.0k
views
error when using seeFastqPlot
systempiper
seeFastqPlot
software error
ggplot2
geom_histogram
updated 9.6 years ago by
Thomas Girke
★ 1.7k • written 9.6 years ago by
setarosd
• 0
0
votes
4
replies
2.0k
views
systemPipeR with DESeq2
deseq2
systemPipeR
10.9 years ago
Ugo Borello
▴ 340
18 results • Page
1 of 1
Recent ...
Replies
Comment: Heatmap of the Count Matrix
by
ArnulfoByrd
• 0
Perhaps PCA loadings offer a more comprehensive perspective. Now, thinking back, I recall struggling with a similar data reduction dilemma …
Answer: readBam vs read_bam_insert_metrics
by
James W. MacDonald
68k
Depends on what you mean by input. If you mean to ask if you use `readBam` to generate something to use as an argument to `read_bam_insert_…
Answer: How to construct a BSgenome object from a custom genome assembly using BSgenomeF
by
James W. MacDonald
68k
There is an example in the help page for `forgeBSgenomePkgFromTwobitFile`. Have you tried emulating that?
Answer: Guidance on limma for pseudobulk scRNA-seq with multi-factor design
by
Gordon Smyth
53k
What you describe sounds a good approach to me. I would also use sample weights (`sample.weights=TRUE` when running `voomLmFit`) and robust…
Comment: Can I set the normalizationFactors of DEseq2 object as 1 after using RUVg?
by
Michael Love
43k
I moved your post from an "answer" to a "comment". I don't know about `offst()` function, what is the scale or direction, or whether you a…
Votes
Answer: Limpa Pipeline Order
A: How barcode-plot enrichment is calculated?
A: How barcode-plot enrichment is calculated?
Answer: ROAST compare results with complex design
How to account for solvent controls in DESeq2 when comparing follicular vs luteal phase?
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