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ENCODE-DCC
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chip-seq-pipeline2
ENCODE ChIP-seq pipeline
MIT License
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macs2 q-value
#206
User-yx
opened
3 years ago
1
STDERR=zcat: can't stat: error on a MacOSX computer
#205
DebbieCG
opened
3 years ago
0
Peak calling parameter chip.fdr_thresh never changes from default 0.01
#204
alexadowdell
opened
3 years ago
13
BUG: dim(X) must have a positive length
#203
YogiOnBioinformatics
opened
3 years ago
10
MACS2 Peaks Cap
#202
YogiOnBioinformatics
closed
3 years ago
2
Pip 1469 pbam
#201
leepc12
closed
3 years ago
0
Failed to connect cromwell server.. unsupported backened: sge
#200
ambeys
opened
3 years ago
3
v1.6.1
#199
leepc12
closed
3 years ago
0
lib/python3.6/configparser.py", line 846, in items d.update(self._sections[section]) KeyError: 'defaults'
#198
bony45
closed
2 years ago
2
Pip 1433 starch
#197
leepc12
closed
3 years ago
0
Conda env installation on a custom folder
#196
Fnyasimi
closed
3 years ago
3
Pip 1436 fix samtools param
#195
leepc12
closed
3 years ago
0
Renaming output folder and files
#194
sfpacman
closed
2 years ago
1
Analysis of broad marks
#193
emattei
closed
3 years ago
2
regionPeak files generated in tf mode
#192
asmariyaz23
closed
3 years ago
1
read_genome_tsv function has fixed maxRetries parameter
#191
Flowdihow
closed
2 years ago
2
GCP Caper Server Failed & Stopped
#190
kirbyziegler
closed
2 years ago
3
croo
#189
User-yx
closed
2 years ago
1
IDR analysis in tf mode not running
#188
asmariyaz23
closed
3 years ago
4
Replicates can be combined to get the FDR and P-values
#187
asmariyaz23
closed
3 years ago
0
v1.6.0
#186
leepc12
closed
3 years ago
0
TEST_CHIP
#185
leepc12
closed
3 years ago
0
TEST_TICKET_2
#184
leepc12
closed
3 years ago
0
TEST TICKET
#183
leepc12
closed
3 years ago
0
pipeline fails with example json
#182
atreeneedsaforest
closed
3 years ago
5
Pip 1326 optimize resource params
#181
leepc12
closed
3 years ago
0
Pipeline stalled at filter step for one replicate
#180
sckinta
closed
2 years ago
2
Gecode version?
#179
dzhaobio
closed
3 years ago
4
clarify that the user doesn't need a whole separate anaconda installation to install the pipeline
#178
annashcherbina
closed
3 years ago
0
Pipeline issues with sed, split, & libopenblas.dylib - mac users (solved)
#177
Barbarak17
closed
3 years ago
10
v1.5.1
#176
leepc12
closed
3 years ago
0
Pip 1220 refactor control subsampling
#175
leepc12
closed
3 years ago
0
Warning occurred when running the qc2tsv under python3.7
#174
rongxinzh
opened
3 years ago
3
Workflow failure: Failed to evaluate input 'tmp_fastqs'
#173
Barbarak17
closed
3 years ago
8
Error: pipeline dependencies not found.
#172
Barbarak17
closed
3 years ago
3
Pip 1287 reenable custom aligner
#171
leepc12
closed
3 years ago
0
custom aligner option disappeared in v1.5.0
#170
Flowdihow
opened
4 years ago
4
fix for issue #166 (wrong doc for param mapq_thresh)
#169
leepc12
closed
3 years ago
1
Pipeline fails during gc_bias_calc
#168
mhayes8520
closed
3 years ago
8
v1.5.0
#167
leepc12
closed
4 years ago
0
pipeline gets stuck at filtering step
#166
mhayes8520
closed
4 years ago
8
error with install_conda_env.sh
#165
ychsiao1
closed
4 years ago
4
Wran 1618 update annot beds
#164
leepc12
closed
4 years ago
0
Issue with build_genome_data.sh
#163
mhayes8520
closed
3 years ago
2
Issue with install_conda_env.sh
#162
mhayes8520
closed
4 years ago
2
Deactivated link.
#161
abearab
closed
3 years ago
6
Chip.wdl has a limitation of 6 replicates
#160
GFrosi
closed
3 years ago
4
chip.align and chip.align_R1 tasks fail if input FASTQ(s) cannot be hard-linked
#159
rivison
closed
3 years ago
6
Pip 1220 clip chrom end for peaks
#158
leepc12
closed
4 years ago
0
Pip 1220 clip chrom end for peaks
#157
leepc12
closed
4 years ago
0
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