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guideseq
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445
views
Error in bam loading in getUniqueCleavageEvents() in GUIDEseq package
GUIDEseq
18 months ago
StayM
• 0
0
votes
6
replies
1.7k
views
Option to override removal of duplicate reads - GUIDEseq
GUIDEseq
updated 3.5 years ago by
Julie Zhu
★ 4.3k • written 3.5 years ago by
sharvari gujja
▴ 40
0
votes
1
reply
936
views
GUIDEseq - Error combining individual steps into the pipeline
GUIDEseq
updated 3.7 years ago by
Julie Zhu
★ 4.3k • written 3.7 years ago by
sharvari gujja
▴ 40
0
votes
0
replies
686
views
GUIDEseq - filtering offtarget sites present in background controls
GUIDEseq
3.7 years ago
sharvari gujja
▴ 40
0
votes
0
replies
681
views
GUIDEseq: read count for each offtarget
GUIDEseq
3.7 years ago
sharvari gujja
▴ 40
0
votes
0
replies
774
views
Question about input to binReads.sh in GUIDEseq
GUIDEseq
3.7 years ago
sharvari gujja
▴ 40
3
votes
1
reply
1.1k
views
Major on-target peak not appearing in GUIDEseq results
GUIDEseq
updated 4.9 years ago by
Julie Zhu
★ 4.3k • written 4.9 years ago by
David Kuo
• 0
0
votes
2
replies
1.4k
views
getUniqueCleavageEvents() not working in GUIDEseq package
GUIDEseq
updated 5.0 years ago by
Julie Zhu
★ 4.3k • written 5.0 years ago by
Tiffany
• 0
0
votes
4
replies
1.5k
views
GUIDEseq Error using offTargetAnalysisOfPeakRegions
GUIDEseq
updated 6.1 years ago by
Julie Zhu
★ 4.3k • written 6.1 years ago by
tomas.rodriguez
▴ 10
1
vote
3
replies
1.3k
views
GUIDEseq BED input error
GUIDEseq
6.1 years ago
tomas.rodriguez
▴ 10
0
votes
2
replies
1.3k
views
GUIDEseq Error in GAlignmentPairs
GAlignmentPairs
GUIDEseq
updated 6.4 years ago by
Julie Zhu
★ 4.3k • written 6.4 years ago by
tomas.rodriguez
▴ 10
0
votes
1
reply
1.0k
views
GUIDEseq outputDir error
GUIDEseq
updated 6.4 years ago by
Julie Zhu
★ 4.3k • written 6.4 years ago by
tomas.rodriguez
▴ 10
0
votes
3
replies
1.5k
views
GUIDEseq plus/minus strand inputs
GUIDEseq
updated 6.4 years ago by
Julie Zhu
★ 4.3k • written 6.4 years ago by
tomas.rodriguez
▴ 10
0
votes
1
reply
974
views
GUIDEseq bam input
GUIDEseq
bam
updated 6.4 years ago by
Julie Zhu
★ 4.3k • written 6.4 years ago by
tomas.rodriguez
▴ 10
0
votes
0
replies
1.5k
views
Analyzing CIRCLE-seq data using GUIDEseq package
GUIDEseq
CIRCLE-seq
8.2 years ago
Julie Zhu
★ 4.3k
2
votes
4
replies
2.1k
views
GUIDESeq analysis - handling biological and technical replicates
guideseq
updated 8.4 years ago by
Julie Zhu
★ 4.3k • written 8.4 years ago by
aamir.mir
• 0
2
votes
1
reply
1.5k
views
createBarcodeFasta in GUIDEseq
GUIDEseq
updated 8.4 years ago by
Julie Zhu
★ 4.3k • written 8.4 years ago by
aamir.mir
• 0
17 results • Page
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Comment: DESeq2 - how many surrogate variables from svaseq, use of lfcshrink
by
ja569116
• 0
Hi @atpoint Thanks for the information. Could you please expand on when to use adjusted p-values vs nominal p-values. My understanding was …
Answer: limpa analysis advice
by
Gordon Smyth
53k
It is actually very hard to estimate the DPC from observed data, because the curve is function of unobserved intensities rather than a func…
Answer: When to use edgeR or limma
by
Gordon Smyth
53k
The short answer is that we generally prefer edgeR for applications with lots of small counts and limma for complex designs with random eff…
Comment: limpa-blank normalization and Spectronaut's PTM stoichiometry
by
Gordon Smyth
53k
I updated the above answer today.
Answer: When to use edgeR or limma
by
James W. MacDonald
68k
I would use edgeR's quasi-likelihood model for any analysis with a smaller number of observations (like 3 vs 3 or similar), but if you have…
Votes
Answer: When to use edgeR or limma
Answer: When to use edgeR or limma
Answer: When to use edgeR or limma
Answer: When to use edgeR or limma
A: deseq2 - paired samples in 2 sequencing types with very different library sizes
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