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kundajelab
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atac_dnase_pipelines
ATAC-seq and DNase-seq processing pipeline
BSD 3-Clause "New" or "Revised" License
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AttributeError: 'Series' object has no attribute 'find'
#101
LeilaNantes
closed
6 years ago
2
issue on bowtie index2 is missing
#100
hongchaoguo
closed
6 years ago
3
fail at run_ataqc.py
#99
yinshiyi
closed
6 years ago
1
Task failed: postalign_bam.bds', line 278
#98
ahorn720
closed
6 years ago
22
Different peak numbers (unique peak names) when merging fastq files
#97
wamber-aww
closed
6 years ago
1
Trouble Installing
#96
ahorn720
closed
6 years ago
7
error: while accessing https://github.com/kundajelab/atac_dnase_pipelines/info/refs
#95
dcheng1
closed
6 years ago
1
Fatal error: atac.bds, line 1200, pos 2. Task/s failed.
#94
pshoosht
closed
6 years ago
2
Please use "sort -k1,1 -k2,2n" with LC_COLLATE=C, or bedSort and try again.
#93
sky-peng
closed
6 years ago
4
Unknown error while launching Atac-Seq pipeline
#92
lpalomerol
closed
6 years ago
7
Bowtie2 error
#91
MengjunWu
closed
6 years ago
4
Install error during IDR replacement section of install_dependencies.sh: unable to execute 'gcc'
#90
AmandaBirmingham
closed
6 years ago
2
ataqqc failed: 'filename'.trim_gc.txt does not exist
#89
jonasungerback
closed
6 years ago
33
Does the official BDS work now instead of the patched one?
#88
ghuls
closed
6 years ago
1
about specifying controls/backgrounds
#87
tanpuekai
closed
6 years ago
1
about tss footprint
#86
tanpuekai
closed
6 years ago
14
Error sorting data frame in run_atacqc.py
#85
AidanQuinn
closed
6 years ago
1
Setting -out_dir not working
#84
abdohlman
closed
6 years ago
0
Error in genome data installation
#83
xiangzhu
closed
6 years ago
4
What exactly does this error mean?
#82
Jenniforever
closed
6 years ago
18
Connection Error During Installation
#81
pdellorusso
closed
6 years ago
0
Fatal error: atac_dnase_pipelines/modules/sys.bds, line 143, pos 2. Exec failed.
#80
yeouyang
closed
6 years ago
18
cp --remove-destination does not work on OS
#79
elhamazizi
closed
6 years ago
7
dupmark not running?
#78
albertoriva
closed
6 years ago
4
Fatal error: atac.bds, line 1216, pos 2. Cannot allocate memory.
#77
PabloDomizi
closed
6 years ago
6
BDS reporting wrong line
#76
amirshams84
closed
6 years ago
3
MACS2 Set pValue to -1 and terrifies IDR
#75
amirshams84
opened
6 years ago
3
No adapter trimming?
#74
jusu-E404
closed
6 years ago
2
Memory specification
#73
albertoriva
closed
6 years ago
3
Python egg cache error
#72
albertoriva
closed
6 years ago
6
NotADirectoryError -- looks to have misparsed a .py as a dir
#71
jet456
closed
6 years ago
2
Conflict with local python packages
#70
dimkonstanto
closed
6 years ago
8
Java error: Disk quota exceed
#69
leepc12
closed
6 years ago
0
Same number of Raw Peaks and Naive Overlap Peaks
#68
ajlawler
closed
6 years ago
2
500K narrowPeak vs Conservative set
#67
rbronste
closed
6 years ago
1
ATAC-seq pipeline error
#66
yingsun-ucsd
closed
6 years ago
2
enable osx64 install dependency and create conda env
#65
biomystery
closed
6 years ago
0
Install pyfaidx dependency
#64
mdshw5
closed
6 years ago
1
Install genome faidx issue
#63
rbronste
closed
6 years ago
4
Error and no QC following 3 replicate PE run
#62
rbronste
closed
6 years ago
4
MACS2 "Segmentation fault (core dumped) macs2 callpeak "
#61
niehu2018
closed
6 years ago
0
Bowtie and dedup options
#60
rbronste
closed
6 years ago
2
ValueError: could not convert string to float: All
#59
jet456
closed
6 years ago
9
Bowtie dependency issue load
#58
rbronste
closed
6 years ago
7
Unknown error in macs2 step
#57
adamtongji
closed
6 years ago
9
add local nfs delay
#56
chrisprobert
closed
7 years ago
0
mention that TMPDIR must be set
#55
antonkratz
closed
6 years ago
1
download and installation of hg38 hangs and does not seem to do anything / "Unable to establish SSL connection"
#54
antonkratz
closed
7 years ago
1
Unknown Error in IDR Step
#53
smuchnik
closed
7 years ago
4
"Filename too long" error at install_genome_data.sh for hg38 and mm10 (Linux)
#52
ghost
closed
6 years ago
1
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