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htseqtools
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Which library now contains the ssdCoverage command that used to be found in the htseqtools package for R version 4.0.1 ?
Deprecation
chipseq
htseqtools
Bioconductor
updated 14 months ago by
Basti
▴ 280 • written 14 months ago by
Mick
• 0
1
vote
3
replies
2.2k
views
HTSeq-count on several gff3/gtf files for use in DESeq2
htseqtools
deseq2
counts
cuffdiff
6.3 years ago
Jon Bråte
▴ 180
0
votes
4
replies
1.1k
views
htSeqTools errors
Coverage
htSeqTools
Coverage
htSeqTools
updated 10.2 years ago by
Valerie Obenchain
★ 6.7k • written 10.3 years ago by
Juan L. Mateo
▴ 80
0
votes
1
reply
1.3k
views
GenomicRanges requires a IRanges version not available in the repository
GenomicRanges
htSeqTools
GenomicRanges
htSeqTools
updated 10.3 years ago by
Vincent J. Carey, Jr.
6.6k • written 10.3 years ago by
Juan L. Mateo
▴ 80
0
votes
1
reply
554
views
htSeqTools - filtered reads > BED?
IRanges
htSeqTools
IRanges
htSeqTools
updated 10.3 years ago by
Michael Lawrence
11k • written 10.3 years ago by
Ian Donaldson
▴ 70
0
votes
0
replies
593
views
htSeqTools: using GRanges and GRangesList
convert
htSeqTools
convert
htSeqTools
10.3 years ago
Oscar Reina
▴ 20
0
votes
2
replies
787
views
htSeqTools - naming RangedData objects?
htSeqTools
ASSIGN
htSeqTools
ASSIGN
updated 10.3 years ago by
Michael Lawrence
11k • written 10.3 years ago by
Ian Donaldson
▴ 70
7 results • Page
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Comment: EnrichGO not working with db created from annotationhub
by
Lucía
• 0
I have this, can this be used for GO in R? ``` 115709282 LOC115709282 phenylalanine ammonia-lyase 115699364 LOC115699364 …
Answer: EnrichGO not working with db created from annotationhub
by
Lucía
• 0
Hi, thanks so much for all your replies and running the code and confirming. I have not seen any GO term annotations for Cannabis so far…
Comment: TPM data Differential expression analysis
by
Gordon Smyth
45k
I have nothing to add my previous answer, which seems quite clear and umbiguous.
Answer: Difference between raw counts and featureCounts for DESeq2
by
swbarnes2
★ 1.0k
The count output from featureCounts is suitable for use with DESeq.
Comment: Subsetting operation on CompressedGRangesList object 'x' produces a result tha
by
Jiping Wang
▴ 70
Hi H. Do you have any clues what the bug or problem could be? thanks. Jiping
Votes
Answer: Difference between raw counts and featureCounts for DESeq2
Comment: Case Studies Data Missing in Rsubread
Answer: rtracklayer S.h
Answer: rtracklayer S.h
Answer: DESeq2: Extracting Averaged Counts Information from dds and rld
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