aryeelab hichipper issues

aryeelab / hichipper

A preprocessing and QC pipeline for HiChIP data

MIT License

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issues

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Conceptual question: identifying anchors

#95 evaham1 opened 1 year ago
0
userSuppliedPeaks.bed.tmp_pad.bed.tmprf.tmp

#94 yalongan opened 1 year ago
0
Rscript path

#93 yanchunzhang opened 2 years ago
0
"error in evaluating the argument 'object' in selecting a method for function 'summary': missing value where TRUE/FALSE needed"

#92 Moonriver1988 opened 2 years ago
3
Something went wrong in determining peaks for anchor inference; rerun with the flag to debug.

#91 Gemma-Zhang-326 opened 3 years ago
4
problem with python script

#90 robeach78 opened 3 years ago
3
Error determining peaks for anchor inference

#89 AnaAzambuja opened 3 years ago
2
Something went wrong in determining peaks for anchor inference

#88 woshiyangsi opened 3 years ago
0
Question about summary table in QC report HTML page

#87 ledsall opened 3 years ago
0
error in running qcReport_make.Rmd

#86 jielv opened 3 years ago
1
"*_temporary_hichipperPeaks.bed_pad.bed.tmp" has size 0 issue

#85 shanwai1234 opened 4 years ago
1
Error determining peaks for anchor inference

#84 AnaAzambuja opened 4 years ago
3
HiChIP vs HiC input?

#83 Mlad22 opened 4 years ago
2
IOError: [Errno 2] No such file or directory: .log

#82 Rseq opened 4 years ago
4
.cool format output

#81 vidaletal opened 4 years ago
0
--macs2-string parameter: can I use --control?

#80 vidaletal opened 4 years ago
2
outputing statistics different with the qcreport

#79 Wenbin-Wang opened 4 years ago
2
hichipper in CALL mode

#78 md1587 opened 4 years ago
1
outputing statistics about anchor peaks

#77 armenabnousi opened 4 years ago
1
hichipper into .hic file

#76 AnaAzambuja opened 5 years ago
1
Issue with MACS Output

#75 jlpulice opened 5 years ago
10
Testing a version for background sample processing

#74 caleblareau closed 5 years ago
0
ERROR: Missing hic_results or bowtie_results files for H446-rep

#73 jlpulice closed 5 years ago
2
no mango file

#72 AnaAzambuja opened 5 years ago
7
Parameters questions

#71 skytguuu closed 5 years ago
4
install issue

#70 skytguuu closed 5 years ago
0
No qc reports

#69 emarti88 opened 5 years ago
1
Double counting validParis

#68 WeiqiangZhou opened 5 years ago
2
chip-seq input question of Hichipper

#67 skytguuu closed 5 years ago
1
Hichipper Inter-chromosomal Loop Statistics

#66 bdecker01 opened 5 years ago
2
HQ Unique Mapped more than Total PETs???

#65 JungWoongJae opened 5 years ago
0
Understanding the output

#64 gouthamatla opened 5 years ago
0
Hicpro files

#63 0xaf1f closed 5 years ago
6
Read counts in anchors

#62 gouthamatla opened 5 years ago
0
Integration of replicates for HiChIP data

#61 yhx-tj opened 5 years ago
0
Error in { : task 1 failed - "need at least four unique 'x' values"

#60 ghost opened 5 years ago
0
Error using GRCh38.p12 human genome assembly

#59 bressin closed 5 years ago
6
Error in hichipper Rscript qc Report

#58 boconnell89 opened 5 years ago
2
Hichipper on DNase/Mnase type of data (no Resfrag required)

#57 gundalav opened 5 years ago
1
About the pre processing / RM_DUP = 0

#56 vidaletal closed 4 years ago
4
.rds not generated

#55 aperreault opened 5 years ago
2
Error in { : task 1 failed - "need at least four unique 'x' values" ; Calls: %do% -> <Anonymous>

#54 vidaletal closed 5 years ago
2
the difference between *.interaction.txt.gz and *.filt.intra.loop_counts.bedpe

#53 WenChangYu opened 5 years ago
1
could not find function "endsWith"

#52 wlwtan opened 6 years ago
2
*_allValidPairs: No such file or directory

#51 DoaneAS closed 5 years ago
4
--make-ucsc flag error

#50 vidaletal closed 4 years ago
3
Error in { : task 1 failed - "incorrect number of dimensions" Calls: %do% -> <Anonymous> Execution halted

#49 vidaletal closed 5 years ago
1
inputting bam file - 'one.filt.intra.loop_counts.bedpe' does not exist in current working directory

#48 armenabnousi opened 6 years ago
1
ERROR: macs2 peak calling was not successful

#47 aperreault opened 6 years ago
12
Error message regarding 'x' values

#46 uklejaj opened 6 years ago
3