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systemPipeR
•
reset
14
votes
10
replies
3.6k
views
Error when trying to preprocessReads() : "Error: logical subscript contains NAs"
systempiper
5.3 years ago
Deleted
▴ 70
0
votes
7
replies
3.6k
views
DESeq2 LRT Error: less than one degree of freedom, perhaps full and reduced models are not in the correct order
deseq2
systempiper
Tutorial
7.8 years ago
musa
▴ 10
0
votes
4
replies
1.5k
views
systemPipeR with DESeq2
deseq2
systemPipeR
9.4 years ago
Ugo Borello
▴ 340
0
votes
4
replies
1.4k
views
SystemPipeR GO term enrichment analysis - filterDEG
systempiper
go term
7.8 years ago
A Gossner
▴ 50
2
votes
3
replies
2.0k
views
SystemPipeR: alignments with ambiguous pairing were dumped.
R
rnaseq
tophat
summarizeoverlaps
systempiper
updated 7.4 years ago by
Thomas Girke
★ 1.7k • written 7.4 years ago by
abass.conteh
• 0
0
votes
3
replies
1.6k
views
error: NA counts not permitted
systempiper
edger
rna-seq
updated 6.0 years ago by
Aaron Lun
★ 28k • written 6.0 years ago by
clarisbaby
• 0
0
votes
2
replies
1.2k
views
runCommandline error - bash: module: command not found
runCommandline
systemPipeR
bash
5.5 years ago
rj.innet
• 0
3
votes
2
replies
940
views
How to export Slurm to my PATH in Ubuntu 20.04
systemPipeRdata
systempipeR
2.0 years ago
appropiate
• 0
0
votes
2
replies
1.6k
views
error when using seeFastqPlot
systempiper
seeFastqPlot
software error
ggplot2
geom_histogram
updated 8.2 years ago by
Thomas Girke
★ 1.7k • written 8.2 years ago by
setarosd
• 0
1
vote
2
replies
1.9k
views
Problem with systemPipeR package: run_edgeR or run_DESeq2 functions don't work
systempiper
run_edgeR
updated 7.5 years ago by
Thomas Girke
★ 1.7k • written 7.5 years ago by
alexandr.gopanenko
▴ 50
0
votes
2
replies
1.2k
views
Why all of the logFC are NA in my edgeDF2
R
edger
systemPipeR
7.1 years ago
xuertowong
• 0
0
votes
2
replies
655
views
systemARGS not found
systempiper
5.6 years ago
kimberly.dickson
• 0
0
votes
2
replies
1.1k
views
Problem running (loading) systemPipeR package after downloading
systemPipeR
rnaseq
5.6 years ago
rj.innet
• 0
2
votes
2
replies
2.9k
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 3.2 years ago by
Martin Morgan
25k • written 3.2 years ago by
tina
• 0
0
votes
1
reply
1.1k
views
What R version does systemPipeR runs
systempiper
R
batchjobs
updated 6.5 years ago by
Thomas Girke
★ 1.7k • written 6.5 years ago by
tarun2
• 0
0
votes
1
reply
716
views
how to analysis chip-seq data
systemPipeR
updated 2.3 years ago by
dcassol
▴ 100 • written 2.3 years ago by
Bioinformatics
▴ 30
0
votes
0
replies
475
views
Subdirectories created by systemPipeR
systemPipeRdata
systemPipeR
2.1 years ago
appropiate
• 0
0
votes
0
replies
655
views
Finding longest non overlapping open reading frames
predORF
systemPipeR
ORF
prediction
5.0 years ago
Mr.RB
▴ 20
18 results • Page
1 of 1
Recent ...
Replies
Comment: miRTarRnaseq library
by
mercedeh.movassagh
▴ 10
Yes that is correct
Comment: What benchmark should I use for setting the EdgeR filterByExpr min.count paramet
by
Gordon Smyth
50k
It is the minimum group size rather than the total number of samples that is relevant. `min.prop` is more a biological parameter rather th…
Answer: Microarray Limma Model fitting and DEG
by
Gordon Smyth
50k
This dataset seems straightforward to analyse using the original MAS expression values on GEO. MAS expression values are known to be noisy …
Answer: Trimming a section of a scaffold from a genome
by
James W. MacDonald
65k
It's undoubtedly possible, but you don't provide enough information to go on. If I assume you are talking about an existing `BSgenome` pack…
Comment: DEG Filtering
by
Gordon Smyth
50k
I already know that you using CEL files because you need them to perform RMA normalization. Yes, you should follow the advice I have alread…
Votes
DESeq2 normalization vs VST vs rlog
Answer: DESeq2 "Contrast" option
Answer: error in ChAMP loading file
Circumvent creating .ff files in the working directory when using genotype.Illumina() function
Answer: Problem with maplot {affy} method when using rma {affy} method output as its inp
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Pierre Lindenbaum
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