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ay-lab
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FitHiChIP
Statistically Significant loops from HiChIP data
MIT License
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cat: /volumes/easystore/HiChIP_CTCF/Matrix_BinSize5000/sample.interactions.initial.bed: No such file or directory - FitHiChIP is quiting
#107
hd931
opened
4 months ago
0
FitHiChIP_Singularity.sh ERROR
#106
yxralba088
opened
5 months ago
0
Differential loop analysis
#105
helenhuangmath
opened
8 months ago
1
FitHiChIP requests different input than specified in documentation
#104
roniweiss12
opened
9 months ago
1
An easy way to get the whole genome expected interaction matrix
#103
zhangylab
opened
11 months ago
1
Error in .compressOffsets(y, offset = offset) : offsets must be finite values Calls: ApplyEdgeR -> exactTest -> mglmOneGroup -> .compressOffsets
#102
Gemma-Zhang-326
opened
1 year ago
1
How to get common loops between two samples
#101
remeseirogrp
opened
1 year ago
4
option to fragment interactions?
#100
hugch2020
opened
1 year ago
1
Should input cool files be balanced/normalized?
#99
nyuhic
closed
1 year ago
2
Lower number of Significant Interactions
#98
koushik20
opened
1 year ago
1
Normalization of regions with focal copy number amplification
#97
dmuliaditan
closed
1 year ago
2
mcool format as an input
#96
MariaMetelova
opened
1 year ago
1
HiC-Pro installation issue in FitHiChIP
#95
koushik20
closed
1 year ago
7
Error while using FitHiChIP_Docker.sh - Docker Image might be outdated
#94
dvesposito
opened
1 year ago
1
Error in smooth.spline
#93
evaham1
opened
1 year ago
1
Reference genome used for inferring peaks from HiChIP data
#92
koushik20
closed
1 year ago
3
Running FitHiChIP error for .hic data
#91
cauyrd
opened
1 year ago
2
z
#90
mctackett20
closed
1 year ago
0
fitHiChIP produces very small amount of peaks for H3K4me3 and H3K27ac
#89
FALab500
opened
1 year ago
1
Optional parameter to disable checking for HiCPro
#88
jeremyd85
opened
2 years ago
3
error in evaluating the argument 'table' in selecting a method for function 'match': undefined columns selected
#87
Gemma-Zhang-326
closed
2 years ago
2
Files in EdgeR_Loops_* folder are all blank but title when running differential FitHiChIP analysis
#86
Gemma-Zhang-326
closed
2 years ago
1
Unable to handle library error
#85
nahmed125
opened
2 years ago
7
FitHiChIP compatibility with the dm6 Drosophila melanogaster genome.
#84
JosephAguilera
closed
2 years ago
5
Syntax error when using Docker for executing FitHiChIP
#83
Soh-hyon
closed
2 years ago
2
/FitHiChIP/FitHiChIP_HiCPro.sh: line 841: [[: 0.01: syntax error: invalid arithmetic operator (error token is ".01")
#82
YichaoOU
closed
2 years ago
4
Running FitHiChIP did not report any error, only print 'SORRY !!!!!!!! ……'
#81
Miracle-Yao
closed
2 years ago
5
Normalized contact value?
#80
yanchunzhang
opened
2 years ago
7
Singularity
#79
pna059
closed
2 years ago
2
CombineNearbyInteraction failing
#78
pna059
closed
2 years ago
3
check the version
#77
wbszhu
closed
2 years ago
2
Very small number of significant interactions
#76
arakawa7
closed
2 years ago
4
Number of locus pairs with nonzero contact count is zero - FitHiChIP is quiting !!!
#75
poflawless
closed
2 years ago
4
Indexing of large genomes
#74
pna059
closed
2 years ago
1
Use of `histdata$dist` is discouraged. Use `dist` instead.
#73
poflawless
closed
2 years ago
1
Error in hist.default(histdata$dist, breaks = seq(min_dist, max_dist, :
#72
hanshanmengqi
closed
2 years ago
3
ChIPSeqAlign file for differential analysis
#71
xumai-du
opened
2 years ago
9
Halts at Regression Model
#70
vivianschu
closed
2 years ago
5
CHIP-seq inferred from HICHIP peak
#69
xumai-du
closed
2 years ago
1
Hicpro version
#68
xumai-du
closed
2 years ago
3
More details about the example data
#67
zxwang2019
closed
2 years ago
2
Differential Loop Analysis
#66
vivianschu
closed
3 years ago
4
how to do differential analysis for drug treated sample?
#65
jiangshan529
closed
2 years ago
1
is there any normalization step?
#64
jiangshan529
closed
2 years ago
2
curious about peak to all and peak to peak
#63
jiangshan529
closed
2 years ago
4
Is there a way to visualize the arcs plot in IGV?
#62
jiangshan529
closed
2 years ago
7
promoter capture Hi-C analysis
#61
BenxiaHu
closed
2 years ago
1
compare and rank loops
#60
wbszhu
closed
2 years ago
0
mcfork error while using TestData
#59
sillysean
closed
2 years ago
4
Fix sorting with header row;
#58
moritzschaefer
opened
3 years ago
1
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