0
votes
0
answers
167
views
0
answers
csaw intallation issue: cannot find "lib" in Rhtslib installation
csaw diffhic rhtslib written 4 months ago by favorov0 • updated 4 months ago by Martin Morgan ♦♦ 21k
2
votes
1
answer
162
views
1
answer
complex design for chip-seq analysis
chipseq limma multiple factor design design matrix csaw written 4 months ago by Assa Yeroslaviz1.3k • updated 4 months ago by Aaron Lun18k
1
vote
1
answer
107
views
1
answer
the Normalise function in csaw
csaw written 4 months ago by tangj10
0
votes
1
answer
122
views
1
answer
2
votes
1
answer
118
views
1
answer
csaw::combineTests: Error: length(ids) == nrow(tab) is not TRUE
csaw written 5 months ago by endrebak8520 • updated 5 months ago by Aaron Lun18k
3
votes
1
answer
272
views
1
answer
2
votes
1
answer
629
views
1
answer
Exporting normalized counts over final DB windows from csaw
edger chip-seq csaw written 6 months ago by jms12230 • updated 6 months ago by Ryan C. Thompson6.3k
1
vote
1
answer
211
views
1
answer
csaw : effect of library size on filtering of uninteresting windows
csaw written 11 months ago by Vivek.b40 • updated 11 months ago by Aaron Lun18k
2
votes
1
answer
178
views
1
answer
Run windowCounts only on annotated regions?
csaw written 12 months ago by endrebak8520 • updated 12 months ago by Aaron Lun18k
3
votes
1
answer
416
views
1
answer
Hill in P-value distribution for heterogenous ChIP-seq samples
limma edger sva csaw qsmooth written 12 months ago by jma199130 • updated 12 months ago by Aaron Lun18k
3
votes
1
answer
409
views
1
answer
Differential Pol2 pausing analysis
chipseq edger csaw differential binding analysis written 12 months ago by dalerr0 • updated 12 months ago by Aaron Lun18k
3
votes
1
answer
343
views
1
answer
Use csaw to build matrix for heatmap?
chipseq edger csaw written 12 months ago by jmKeith0 • updated 12 months ago by Aaron Lun18k
3
votes
1
answer
331
views
1
answer
Interpretation of cross correlation plot to determine fragment length
chip-seq csaw histone written 13 months ago by siklenkak0 • updated 13 months ago by Aaron Lun18k
2
votes
1
answer
481
views
1
answer
Removing GC content bias and trended bias from ChIP-seq data
normalization edger cqn chip-seq csaw written 16 months ago by s14376430 • updated 16 months ago by Aaron Lun18k
2
votes
2
answers
389
views
2
answers
2
votes
1
answer
263
views
1
answer
csaw: removing PCR duplicates using dedup flag
csaw dedup written 16 months ago by asif.zubair0 • updated 16 months ago by James W. MacDonald45k
2
votes
1
answer
412
views
1
answer
csaw with negative controls
csaw written 19 months ago by chriad10
5
votes
1
answer
478
views
1
answer
1
vote
1
answer
813
views
1
answer
Normalization of chip-seq data in manually specified regions using CSAW
chip-seq csaw tmm tss written 21 months ago by saadmurtazakhan10 • updated 21 months ago by Aaron Lun18k
1
vote
1
answer
504
views
1
answer
csaw filterWindows function results in a warning: ("Zero library size detected.")
csaw written 21 months ago by chriad10 • updated 21 months ago by Aaron Lun18k
3
votes
1
answer
312
views
1
answer
window counts in csaw
counts csaw written 21 months ago by nobishvarghese0 • updated 21 months ago by Aaron Lun18k
2
votes
1
answer
328
views
1
answer
How does csaw handle multiply aligned reads?
chip-seq csaw written 21 months ago by endrebak8520 • updated 21 months ago by Aaron Lun18k
1
vote
1
answer
424
views
1
answer
1
vote
1
answer
252
views
1
answer
csaw: post clustering description of regions
csaw mergewindows written 22 months ago by asif.zubair0 • updated 22 months ago by Aaron Lun18k
2
votes
1
answer
259
views
1
answer
csaw: when not to dedup
csaw dedup written 22 months ago by asif.zubair0 • updated 22 months ago by Aaron Lun18k
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