nservant HiC-Pro issues

nservant / HiC-Pro

HiC-Pro: An optimized and flexible pipeline for Hi-C data processing

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issues

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Error at contact maps step

#309 virginiascarlett closed 4 years ago
3
Problem with merging reads

#308 sanchari24 closed 4 years ago
17
HiC-Pro does not perform deduplication even when RMDUP=1 is set in the config file unless the 'merge-persample' option is used, but this is not run by default and the option to do is not documented on the github page

#307 gbonora closed 4 years ago
2
mapped_2hic_fragments possible memory issue

#306 auberginekenobi closed 4 years ago
5
How to use HiTC to scaffold genome, general methodology after HiC-Pro

#305 rob123king closed 4 years ago
2
ICE normalisation step fail

#304 rob123king closed 4 years ago
6
how to run -s ice_norm command directly from .matrix

#303 KunFang93 closed 4 years ago
4
*DEpairs or the *SCpairs files

#302 francisfa closed 4 years ago
2
Error in hicpro2juicebox.sh process

#301 clementmo closed 3 years ago
1
Error for hicpro2juicebox.sh processing. Help

#300 clementmo closed 4 years ago
1
Is the final output matrix in log scale or normalized count number?

#299 jennymoon90 closed 4 years ago
1
singularity HiC-Pro_2.11.3-beta/bin/../scripts//Makefile:191: recipe for target 'ice_norm' failed

#298 amagli opened 4 years ago
3
Error in HiC-Pro alignment step！help！

#297 wzhjlau2009 closed 4 years ago
6
[Bug] Sequential mode doesn't generate all quality check figures

#296 auberginekenobi closed 4 years ago
4
Exit: Error in reads alignment

#295 wuxiaopei0509 closed 4 years ago
14
correct the order of legends and fix issue #262

#294 omegahh closed 4 years ago
2
Forward and reverse reads not paired

#293 mahossen closed 4 years ago
1
Mismatch in mapped_2hic_fragments.py

#292 rdauria closed 4 years ago
1
NameError: name 'or2_fragname' is not defined

#291 jennymoon90 closed 4 years ago
1
label misplacement in statistics pdf

#290 TypicalSEE closed 4 years ago
2
System Config file not Found

#289 yihengp2 closed 4 years ago
3
stripes without scores

#288 rikrdo89 closed 4 years ago
1
How can I convert HiC-Pro output into homer format

#287 QianzhaoJ closed 5 years ago
2
How to hide grey lines in Correlation map when using HiTC

#286 QianzhaoJ opened 5 years ago
2
Bowtie error and stopped pipeline

#285 Rayko87 opened 5 years ago
5
recipe for target 'bowtie_local' failed

#284 jeffpkamp closed 5 years ago
7
HiC-Pro fails during normalization

#283 StefanoLonardi closed 3 years ago
4
A suggestion regarding "GENOME_FRAGMENT not found. The file does not exist ?"

#282 hwick closed 4 years ago
1
How to generate the gene.gr input for HiTC pca.hic function?

#281 jennymoon90 opened 5 years ago
3
value in iced biases file is different from the results of HICPRO2FITHIC.PY.

#280 yangxiaofeill closed 4 years ago
1
users can't use ice_norm which installed by root

#279 rysterzhu closed 4 years ago
0
How to obtain contact probabilities from HiC-Pro results

#278 zhuyezhang closed 5 years ago
0
fragment name issue of .allValidPairs file

#277 yangxiaofeill opened 5 years ago
3
removing duplicates from .validPairs files

#276 rikrdo89 closed 4 years ago
1
Using validPairs file to create .hic and .assembly files

#275 wlhCNU closed 4 years ago
1
[bowtie_pairing] Error 1

#274 CFeregrino closed 5 years ago
2
update doc

#273 nservant closed 4 years ago
0
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#272 BenxiaHu closed 5 years ago
1
GENOME_FRAGMENT not found. The file does not exist ?

#271 jiexili closed 5 years ago
3
[MRG] Adding contributor's guidelines

#270 NelleV closed 5 years ago
6
multiqc module for pooled data

#269 zyqfrog10 opened 5 years ago
1
merge_valid_interactions Error 1

#268 bhill-17 closed 4 years ago
5
Identify unligated internal reads in Micro-C dataset

#267 zhang-jiankun closed 5 years ago
2
SparseToDense.py_error with input matrix

#266 zyqfrog10 closed 3 years ago
7
problem with ins matrix generated by sparseToDense

#265 zyqfrog10 closed 5 years ago
1
HiC-Pro downstream differential analysis

#264 rikrdo89 closed 5 years ago
2
hic_qc Error 1

#263 bhill-17 closed 4 years ago
9
CPU usage is still double in 2.11.1

#262 ChenfuShi closed 4 years ago
3
Problems with calling libraries from python

#261 Rayko87 closed 4 years ago
15
[E::bgzf_flush] File write failed (wrong size)

#260 TypicalSEE closed 5 years ago
5

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