ay-lab fithic issues - Githubissues

ay-lab / fithic

Fit-Hi-C is a tool for assigning statistical confidence estimates to chromosomal contact maps produced by genome-wide genome architecture assays such as Hi-C.

MIT License

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issues

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[Question] Does the read depth of the raw/iced matrix generated by HiCPro influence FitHiC2 loop calling?

#72 Miracle-Yao opened 3 months ago
1
About HiCPro2FitHiC.py error

#71 HW-Superior opened 5 months ago
0
not enough values to unpack (expected 5, got 1)

#70 wangzhaohui-001 opened 5 months ago
1
"util" scripts missing from conda install

#69 vidal-adrien opened 6 months ago
1
Question about calculation of ExpCC and contactcounts for another loop set

#68 Miracle-Yao opened 9 months ago
0
Questions about using .hic as input

#67 nyuhic opened 1 year ago
0
Out of range

#66 Lucas446 opened 1 year ago
8
fithic "invalid syntax"

#65 Lucas446 opened 1 year ago
1
Does fithic work on single chromosome inputs?

#64 Jakob-Zerbs opened 1 year ago
0
install problem

#63 jiangshan529 opened 1 year ago
6
Update code

#62 souryacs closed 2 years ago
0
Update README.md

#61 souryacs closed 2 years ago
0
FitHiC2 with replicates

#60 DaianeH closed 2 years ago
0
fragmentMid

#59 BenxiaHu closed 2 years ago
1
Any example of using .hic file as the input?

#58 Lattesnow opened 2 years ago
2
merge_filter reduces significant interactions from 12M to 10k

#57 pna059 opened 2 years ago
0
Out of 70041 loci 70041 were discarded with biases not in range [0.5 2]

#56 nisar-BIGPM opened 2 years ago
3
Difference between ICE and KR biases. Setting up the bias limits.

#55 pna059 opened 2 years ago
5
list index out of range

#54 shenlinyong closed 2 years ago
2
how to prepare my `input file`?

#53 shenlinyong opened 2 years ago
2
test run AttributeError

#52 mannekim closed 2 years ago
1
HiCKRy.py KeyError: '0'

#51 mannekim closed 2 years ago
5
Allele chromatin loop

#50 BenxiaHu opened 2 years ago
0
error while running fithic with data generated by hic-pro

#49 LinXialab closed 2 years ago
8
Fragment length is not consistent with fithic resolution (-r) in tests data

#48 bnjvrjnke opened 3 years ago
1
sequencing depth for loops

#47 BenxiaHu opened 3 years ago
6
fithic crash

#46 fgualdr opened 3 years ago
1
HiCKRy.py generated extreme bias value

#45 QianzhaoJ opened 3 years ago
1
Missing chr1 in output

#44 GRGong closed 3 years ago
1
FitHic crashes

#43 joachimwolff opened 3 years ago
1
TypeError: can only concatenate str (not "int") to str

#42 FatihSarigol opened 3 years ago
8
HiCKRy.py Key errors

#41 Jssmith91 opened 3 years ago
8
How to decide the bin size in interaction loops?

#40 shanwai1234 opened 3 years ago
2
ValueError: max() arg is an empty sequence

#39 sunthink closed 3 years ago
3
error while running FitHiC

#38 priyatamapandey opened 3 years ago
29
OverflowError: cannot convert float infinity to integer

#37 HappyLife-together closed 2 years ago
1
OverflowError: cannot convert float infinity to integer

#36 smurthy55 opened 3 years ago
3
HiCKRy.py: error: the following arguments are required: -i/--interactions, -f/--fragments, -o/--output

#35 fgualdr opened 3 years ago
1
Generate biasfile/KRnorm vector

#34 gheger11 closed 3 years ago
1
Fit-Hic error

#33 BenxiaHu closed 3 years ago
0
Running error

#32 JhinAir closed 3 years ago
7
q-value is always 1 when running FitHiC2 using allValidPairs input

#31 smurthy55 opened 4 years ago
1
Question about the output of merge-filter.sh

#30 QianzhaoJ closed 2 years ago
0
Can't Open File

#29 aakashsur closed 4 years ago
1
Standard Error is always 0

#28 joreynajr closed 4 years ago
4
Merge filter generalizable?

#27 jessakay closed 4 years ago
1
Advice on converting pairix or cooler format to fithic format

#26 jychoilab closed 4 years ago
2
error while using fithic for the interchromosomal interactions

#25 Nohaosma closed 4 years ago
5
Can fithic run low resolution HiC data？

#24 Antony-1996 closed 5 years ago
2
Where to find fragments argument from HiC Pro Pipeline?

#23 emarti88 closed 5 years ago
1