issues
search
kundajelab
/
atac_dnase_pipelines
ATAC-seq and DNase-seq processing pipeline
BSD 3-Clause "New" or "Revised" License
161
stars
81
forks
source link
issues
Newest
Newest
Most commented
Recently updated
Oldest
Least commented
Least recently updated
Bump numpy from 1.11.3 to 1.22.0
#151
dependabot[bot]
opened
2 years ago
0
Bump numpy from 1.11.3 to 1.21.0
#150
dependabot[bot]
closed
2 years ago
1
Error Message: "No such file or directory found: 'java': 'java'"
#149
astephen333
closed
2 years ago
2
Broken link in the README
#148
k3yavi
closed
5 years ago
1
source activate fail
#147
yinshiyi
opened
5 years ago
3
Location of cromwell-34.jar
#146
imk1
closed
5 years ago
1
genome hg38 install
#145
danxunLi
opened
5 years ago
3
Inconsistant behavior of pipeline-runs, with same input parameters
#144
ravipatel4
opened
5 years ago
3
mm10 vs Grcm38(Gencode)
#143
pdellorusso
opened
5 years ago
2
trouble installing genome data for mm10
#142
eunsolp
closed
5 years ago
4
hot fix for MACS2 negative coord
#141
leepc12
closed
5 years ago
0
How to cite this ppeline
#140
sjn7
opened
6 years ago
1
differences between "new" and "old" pipeline
#139
computbiolgeek
opened
6 years ago
4
Installing dependencies (bash install_dependencies.sh
#138
grrompala
opened
6 years ago
1
error running on DNANexus platform
#137
llz-hiv
closed
6 years ago
2
Error during ataqc step "IOError: File [xxx]R1.trim.merged.signal does not exist"
#136
Chokaro
closed
6 years ago
2
Error in postalign_xcor.bds', line 102
#135
beckedorff
opened
6 years ago
5
Fatal error: atac.bds, line 1200, pos 2. Task/s failed....during peakcalling
#134
grrompala
opened
6 years ago
1
Input bams of multiple true replicates
#133
anthonyjpayne
closed
6 years ago
0
Can I install this ATAC-pipeline in Mac?
#132
llz-hiv
opened
6 years ago
16
which files created by this pipeline can be used for homer to find motifs?
#131
llz-hiv
closed
6 years ago
1
SCG SLURM hg38 permissions error?
#130
mkdegorter
closed
6 years ago
9
Steps between pipeline and diffE
#129
raboul101
opened
6 years ago
1
Error : Creating checkpoint file
#128
rehamFatima
closed
6 years ago
25
Compile error for atac.bds
#127
DuYushen
opened
6 years ago
1
Data set
#126
rehamFatima
opened
6 years ago
24
Comparing Treatments with Multiple Paired End Replicates
#125
raboul101
opened
6 years ago
11
Java memory issue
#124
ahorn720
opened
6 years ago
1
Can this pipeline be used for analyzing paired-end 75bp reads?
#123
liangzhuli
opened
6 years ago
1
error in loading caTools
#122
timydaley
closed
6 years ago
4
shuf: read error: Cannot allocate memory at spr_tag_PE step
#121
chesi
closed
6 years ago
4
queue option on Sherlock
#120
timydaley
closed
6 years ago
9
stops at idr2
#119
ahorn720
closed
6 years ago
3
messy row labels on "Comparison to Roadmap DNase" plot
#118
icanwinwyz
closed
6 years ago
3
Is there any difference between Conservative Set and Optimal Set of peaks?
#117
amirshams84
closed
6 years ago
2
Removing Mitochondrial hits is not consistent between replicate and pseudo replicates
#116
amirshams84
opened
6 years ago
1
Fatal error: /atac_dnase_pipelines/modules/conf.bds, line 39. Java heap space
#115
nteran
opened
6 years ago
4
broadpeak calling is off
#114
fanying2015
closed
6 years ago
3
FRiP calculation absent
#113
am33567
opened
6 years ago
1
annotate peaks produced by this pipeline
#112
llz-hiv
closed
6 years ago
2
Error in postalign_xcor.bds line 98
#111
am33567
closed
6 years ago
6
sbatch: error: unable to open file [account]
#110
odegoede
closed
6 years ago
3
Fatal Error in call peaks when starting with tag aligns
#109
easwaranramamurthy
opened
6 years ago
1
java.lang.IndexOutOfBoundsException
#108
am33567
opened
6 years ago
1
Installing genomes from local source.
#107
am33567
closed
6 years ago
4
Bowtie2 mem error? qsub , SGE
#106
Ruismart
closed
6 years ago
2
UnicodeDecodeError: 'ascii' codec can't decode byte 0xc3 in position 30
#105
sckinta
opened
6 years ago
5
Trouble Installing
#104
ahorn720
closed
6 years ago
1
Error with adapter auto detection
#103
easwaranramamurthy
closed
6 years ago
4
Can't kill a non-numeric process ID at /home/mycount/.bds/clusterGeneric/run.pl line 30
#102
llz-hiv
closed
6 years ago
12
Next