0
votes
0
answers
109
views
0
answers
csaw intallation issue: cannot find "lib" in Rhtslib installation
csaw diffhic rhtslib written 27 days ago by favorov0 • updated 26 days ago by Martin Morgan ♦♦ 20k
2
votes
1
answer
108
views
1
answer
complex design for chip-seq analysis
chipseq limma multiple factor design design matrix csaw written 4 weeks ago by Assa Yeroslaviz1.3k • updated 4 weeks ago by Aaron Lun17k
1
vote
1
answer
73
views
1
answer
the Normalise function in csaw
csaw written 6 weeks ago by tangj10
0
votes
1
answer
80
views
1
answer
2
votes
1
answer
75
views
1
answer
csaw::combineTests: Error: length(ids) == nrow(tab) is not TRUE
csaw written 9 weeks ago by endrebak8520 • updated 9 weeks ago by Aaron Lun17k
3
votes
1
answer
227
views
1
answer
2
votes
1
answer
583
views
1
answer
Exporting normalized counts over final DB windows from csaw
edger chip-seq csaw written 3 months ago by jms12230 • updated 3 months ago by Ryan C. Thompson6.1k
1
vote
1
answer
185
views
1
answer
csaw : effect of library size on filtering of uninteresting windows
csaw written 8 months ago by Vivek.b40 • updated 8 months ago by Aaron Lun17k
2
votes
1
answer
150
views
1
answer
Run windowCounts only on annotated regions?
csaw written 9 months ago by endrebak8520 • updated 9 months ago by Aaron Lun17k
3
votes
1
answer
345
views
1
answer
Hill in P-value distribution for heterogenous ChIP-seq samples
limma edger sva csaw qsmooth written 9 months ago by jma199130 • updated 9 months ago by Aaron Lun17k
3
votes
1
answer
330
views
1
answer
Differential Pol2 pausing analysis
chipseq edger csaw differential binding analysis written 9 months ago by dalerr0 • updated 9 months ago by Aaron Lun17k
3
votes
1
answer
273
views
1
answer
Use csaw to build matrix for heatmap?
chipseq edger csaw written 9 months ago by jmKeith0 • updated 9 months ago by Aaron Lun17k
3
votes
1
answer
286
views
1
answer
Interpretation of cross correlation plot to determine fragment length
chip-seq csaw histone written 10 months ago by siklenkak0 • updated 10 months ago by Aaron Lun17k
2
votes
1
answer
412
views
1
answer
Removing GC content bias and trended bias from ChIP-seq data
normalization edger cqn chip-seq csaw written 13 months ago by s14376430 • updated 13 months ago by Aaron Lun17k
2
votes
2
answers
322
views
2
answers
2
votes
1
answer
207
views
1
answer
csaw: removing PCR duplicates using dedup flag
csaw dedup written 13 months ago by asif.zubair0 • updated 13 months ago by James W. MacDonald45k
2
votes
1
answer
361
views
1
answer
csaw with negative controls
csaw written 16 months ago by chriad0
5
votes
1
answer
413
views
1
answer
1
vote
1
answer
689
views
1
answer
Normalization of chip-seq data in manually specified regions using CSAW
chip-seq csaw tmm tss written 18 months ago by saadmurtazakhan10 • updated 18 months ago by Aaron Lun17k
1
vote
1
answer
449
views
1
answer
csaw filterWindows function results in a warning: ("Zero library size detected.")
csaw written 18 months ago by chriad0 • updated 18 months ago by Aaron Lun17k
3
votes
1
answer
272
views
1
answer
window counts in csaw
counts csaw written 18 months ago by nobishvarghese0 • updated 18 months ago by Aaron Lun17k
2
votes
1
answer
277
views
1
answer
How does csaw handle multiply aligned reads?
chip-seq csaw written 18 months ago by endrebak8520 • updated 18 months ago by Aaron Lun17k
1
vote
1
answer
400
views
1
answer
1
vote
1
answer
229
views
1
answer
csaw: post clustering description of regions
csaw mergewindows written 18 months ago by asif.zubair0 • updated 18 months ago by Aaron Lun17k
2
votes
1
answer
237
views
1
answer
csaw: when not to dedup
csaw dedup written 18 months ago by asif.zubair0 • updated 18 months ago by Aaron Lun17k
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