ijuric MAPS issues - Githubissues

ijuric / MAPS

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Please provide an output folder (-O)!

#49 BERICP01 opened 6 months ago
0
samplename.hic.input

#48 ccmeth closed 1 year ago
1
haplotype-resolved PLAC-seq

#47 BenxiaHu opened 2 years ago
0
MAPS with Squirrel Genome

#46 Elliott77 opened 2 years ago
0
ValueError: file does not contain alignment data

#45 ccmeth closed 2 years ago
2
A test case for Arima-MAPS

#44 ryao-mdanderson opened 2 years ago
4
How to define significant interactions by merging 3 different biological replicates?

#43 xumai-du opened 2 years ago
0
marker gene of cerebral cortex cells

#42 cynthier opened 2 years ago
0
VGAM pospoisson model fails with "Error in if (one.more) { : missing value where TRUE/FALSE needed"

#41 jaavedm opened 2 years ago
1
Running MAPS on already mapped, paired and deduplicated file.

#40 Zojka opened 2 years ago
0
Could not retrieve index file for 'A.merged.srtn.bam'

#39 jiangshan529 opened 3 years ago
9
Is MAPS only for cutting enzyme MboI?

#38 jiangshan529 opened 3 years ago
2
question about run the bash script

#37 jiangshan529 opened 3 years ago
2
analyze promoter capture Hi-C

#36 BenxiaHu opened 3 years ago
1
AND/XOR interactions from final output

#35 Zojka closed 2 years ago
2
parameter for ignoring read duplicates

#34 jaavedm opened 3 years ago
1
debug in genomic features generator; adding arima features

#33 armenabnousi closed 3 years ago
0
arima readme

#32 armenabnousi closed 3 years ago
0
restoring readme

#31 armenabnousi closed 3 years ago
0
Arima v2 updates

#30 armenabnousi closed 3 years ago
0
MAPS modeling step fails

#29 danledinh closed 3 years ago
12
added features files for MNase based experiments

#28 armenabnousi closed 3 years ago
0
biological replicates

#27 jmbeesley opened 3 years ago
1
MAPS for other genomes

#26 divyanandu opened 3 years ago
1
is MAPS compatible with MNase-based HiChIP data?

#25 danledinh closed 3 years ago
11
qc fix

#24 armenabnousi closed 3 years ago
0
potential_chrs may be greater than 22

#23 jianhong opened 4 years ago
0
minor bug fixes

#22 armenabnousi closed 4 years ago
0
changes for markdup switch; peaks filename; readme

#21 armenabnousi closed 4 years ago
0
fixed gem usage

#20 armenabnousi closed 4 years ago
0
dup removal switched to rmdup

#19 armenabnousi closed 4 years ago
0
debugging feather

#18 armenabnousi closed 4 years ago
0
added genomic features file generation scripts

#17 armenabnousi closed 4 years ago
0
Error when doing chr13

#16 HuiHuang001 opened 4 years ago
0
binningrange param fixed; frip bug fixed

#15 armenabnousi closed 4 years ago
0
Could you describe the content of the file pointed to in $genomic_feat_filepath

#14 mblanche opened 4 years ago
5
MAPS won't trigger bwa mem

#13 mblanche closed 4 years ago
2
How is this generated? macs2_peaks_final.replicated.narrowPeak

#12 YichaoOU closed 4 years ago
3
what does this mean? SET THE VARIABLES AT THIS PORTION ONLY IF number_of_datasets > 1 (merging exisitng datasets)

#11 YichaoOU closed 4 years ago
7
Correct syntax to define BWA index path

#10 daramirez closed 4 years ago
5
feather output incomplete

#9 qizhijie closed 5 years ago
6
Few interactions can be detected by MAPS

#8 zhuyezhang opened 5 years ago
1
Incomplete MAPS output

#7 aperreault opened 5 years ago
4
Incomplete MAPS output

#6 aperreault closed 5 years ago
6
AttributeError

#5 aperreault closed 5 years ago
10
Can I generate hic without going through the whole pipeline again?

#4 sethb3744 opened 5 years ago
3
Possible takes output from a HiC-Pro run for MAPS?

#3 jphe opened 5 years ago
4
String index out of range error

#2 mapsuser1 opened 5 years ago
6
pysam.sort issue

#1 sethb3744 opened 5 years ago
2