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subjunc
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News:
Experimental data package 'seqc'
seqc
rsubread
featurecounts
subjunc
ercc
News
9.5 years ago
Wei Shi
★ 3.6k
3
votes
1
reply
1.5k
views
Use BAM file created from subjunc function (Rsubread package) for feature counts?
rsubread
subjunc
updated 8.7 years ago by
Wei Shi
★ 3.6k • written 8.7 years ago by
Stephen Piccolo
▴ 590
3
votes
6
replies
2.3k
views
How to use subjunc for differential splicing analysis?
subjunc
edgeR
2.3 years ago
Assa Yeroslaviz
★ 1.5k
2
votes
2
replies
1.2k
views
Failed assertion in subjunc aligner for large indels
rnaseq
subjunc
indel
updated 9.5 years ago by
Wei Shi
★ 3.6k • written 9.5 years ago by
daniel.silvestre
▴ 100
1
vote
5
replies
2.4k
views
Error: Input Files have different Amount of Reads
SubRead
Align
Subjunc
updated 3.8 years ago by
James W. MacDonald
65k • written 3.8 years ago by
abano
• 0
0
votes
2
replies
586
views
'Killed' error during RNAseq alignment
subjunc
data.frame
myExons
Rsubread
updated 10 months ago by
ATpoint
★ 4.1k • written 10 months ago by
Sukeerthi
• 0
0
votes
1
reply
1.3k
views
How to interpret the fusion.txt file output from subjunc (Rsubread package)
rsubread
subjunc
rnaseq
fusion genes
updated 8.8 years ago by
Wei Shi
★ 3.6k • written 8.8 years ago by
misic
• 0
7 results • Page
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Comment: How to use bootRanges to bootstrap small RNA loci (nullranges package)
by
Michael Love
41k
Oh I see, for the second question, I don't have a great answer. I typically think of one set as the anchor, whose ascertainment is driving …
Comment: Help with running egsea()
by
James W. MacDonald
65k
Oh, right. Ideally you would use NCBI (aka Entrez gene) IDs because they are way more likely to be unique. Gene symbols are broken down int…
Comment: Help with running egsea()
by
Chris
• 0
Thanks James! I update the question. The last question mean when we use `buildIdx()`, could we use gene symbol instead of entrezID. However…
Comment: Help with running egsea()
by
James W. MacDonald
65k
I don't understand the last question, but do look at the msigdb.gsets argument to `buildIdx` in the help page for that function.
Answer: Help with running egsea()
by
James W. MacDonald
65k
There are no arguments to `egsea.base`, as it is meant only as a helper function to return the different methods. In addition, if you are u…
Votes
Comment: Help with running egsea()
Answer: Trim/Filter out-of-bounds GRanges
Comment: Help with running egsea()
Answer: How to save the DEXSeq results
Answer: How to save the DEXSeq results
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