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GUIDEseq
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replies
276
views
Error in bam loading in getUniqueCleavageEvents() in GUIDEseq package
GUIDEseq
6 months ago
StayM
• 0
0
votes
6
replies
1.3k
views
Option to override removal of duplicate reads - GUIDEseq
GUIDEseq
updated 2.5 years ago by
Julie Zhu
★ 4.3k • written 2.5 years ago by
sharvari gujja
▴ 40
0
votes
1
reply
748
views
GUIDEseq - Error combining individual steps into the pipeline
GUIDEseq
updated 2.7 years ago by
Julie Zhu
★ 4.3k • written 2.7 years ago by
sharvari gujja
▴ 40
0
votes
0
replies
479
views
GUIDEseq - filtering offtarget sites present in background controls
GUIDEseq
2.7 years ago
sharvari gujja
▴ 40
0
votes
0
replies
520
views
GUIDEseq: read count for each offtarget
GUIDEseq
2.7 years ago
sharvari gujja
▴ 40
0
votes
0
replies
623
views
Question about input to binReads.sh in GUIDEseq
GUIDEseq
2.7 years ago
sharvari gujja
▴ 40
3
votes
1
reply
818
views
Major on-target peak not appearing in GUIDEseq results
GUIDEseq
updated 3.9 years ago by
Julie Zhu
★ 4.3k • written 3.9 years ago by
David Kuo
• 0
0
votes
2
replies
1.1k
views
getUniqueCleavageEvents() not working in GUIDEseq package
GUIDEseq
updated 3.9 years ago by
Julie Zhu
★ 4.3k • written 3.9 years ago by
Tiffany
• 0
0
votes
4
replies
1.2k
views
GUIDEseq Error using offTargetAnalysisOfPeakRegions
GUIDEseq
updated 5.1 years ago by
Julie Zhu
★ 4.3k • written 5.1 years ago by
tomas.rodriguez
▴ 10
1
vote
3
replies
1.1k
views
GUIDEseq BED input error
GUIDEseq
5.1 years ago
tomas.rodriguez
▴ 10
0
votes
2
replies
1.1k
views
GUIDEseq Error in GAlignmentPairs
GAlignmentPairs
GUIDEseq
updated 5.4 years ago by
Julie Zhu
★ 4.3k • written 5.4 years ago by
tomas.rodriguez
▴ 10
0
votes
1
reply
829
views
GUIDEseq outputDir error
GUIDEseq
updated 5.4 years ago by
Julie Zhu
★ 4.3k • written 5.4 years ago by
tomas.rodriguez
▴ 10
0
votes
3
replies
1.2k
views
GUIDEseq plus/minus strand inputs
GUIDEseq
updated 5.4 years ago by
Julie Zhu
★ 4.3k • written 5.4 years ago by
tomas.rodriguez
▴ 10
0
votes
1
reply
780
views
GUIDEseq bam input
GUIDEseq
bam
updated 5.4 years ago by
Julie Zhu
★ 4.3k • written 5.4 years ago by
tomas.rodriguez
▴ 10
0
votes
0
replies
1.2k
views
Analyzing CIRCLE-seq data using GUIDEseq package
GUIDEseq
CIRCLE-seq
7.2 years ago
Julie Zhu
★ 4.3k
2
votes
4
replies
1.7k
views
GUIDESeq analysis - handling biological and technical replicates
guideseq
updated 7.4 years ago by
Julie Zhu
★ 4.3k • written 7.4 years ago by
aamir.mir
• 0
2
votes
1
reply
1.3k
views
createBarcodeFasta in GUIDEseq
GUIDEseq
updated 7.4 years ago by
Julie Zhu
★ 4.3k • written 7.4 years ago by
aamir.mir
• 0
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Comment: Differential variability modelling with vst() expression
by
Michael Love
43k
See Gordon's reply below for an implementation you can use directly.
Comment: Differential variability modelling with vst() expression
by
jtsy6383
• 0
Thanks for the quick and reassuring response Mike! Some follow-ups if I may on the second point. 1) Any comment on the appropriate summary…
Comment: DESeq2 analysis with transcript counts
by
Sink
• 0
Your workflow seems good for a beginner! Using nf-core for RNASeq processing and DESeq2 for differential expression analysis is a standard …
Comment: Different annotation packages (org.Mm.eg.db, EnsDb.Mmusculus.v79, BiomaRt) retu
by
ATpoint
★ 4.6k
Annotation packages have their value. They are a convenient and stable way to make annotations accessible inside R, they are version-contro…
Comment: Installation error for Rsamtools.
by
ATpoint
★ 4.6k
In other words to what James wrote, the package is already installed, there is nothing you need to do.
Votes
Answer: Differential variability modelling with vst() expression
Answer: Differential variability modelling with vst() expression
Comment: Different annotation packages (org.Mm.eg.db, EnsDb.Mmusculus.v79, BiomaRt) retu
Answer: Different annotation packages (org.Mm.eg.db, EnsDb.Mmusculus.v79, BiomaRt) retu
Comment: Why did PCA plots look exactly the same after adjusting for batch covariate in D
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