CGATOxford/cgat
Do not use - please refer to our newest code: https://github.com/cgat-developers/cgat-apps
PythonBSD-3-Clause
Issues
- 4
CGAT fails to install using conda
#400 opened - 1
pip install 'bx-python==0.7.3' - exit status 1
#399 opened by sandbardev - 1
gtf2gtf endless processing
#398 opened by sandbardev - 3
- 0
Is there a positive computational control for correct function of bed2psl.py?
#393 opened by SchwarzEM - 25
- 5
- 3
ImportError on pandas import
#383 opened by IanSudbery - 6
- 9
- 7
"total" alignments is less than "protein_coding"
#325 opened by mebbert - 3
- 8
gtf2gtf - not selecting longest transcript?
#293 opened by ejduncan - 3
- 3
bits_test call in bed_vs_bed.py
#353 opened by sebastian-luna-valero - 6
- 3
Issues with deseq2ParseResults in Expression.py
#290 opened by nickilott - 2
- 2
annotations_pipeline: gene_biotype vs gene_type
#329 opened by jscaber - 3
SRA extract fails for SOLID data
#274 opened by TomSmithCGAT - 6
Need to update install instructions on cgat.org
#321 opened by mebbert - 7
Conda installation broken
#301 opened by IanSudbery - 9
- 0
import bx.bbi.bigwig_file fails
#368 opened by sebastian-luna-valero - 0
- 2
asGFF3() pysam error with gtf2gtf.py
#356 opened by Acribbs - 2
PipelineGWAS.py
#352 opened by sebastian-luna-valero - 1
- 4
TypeError: '<' not supported between instances of 'Bed' and 'Bed' on merging with bed2bed
#347 opened by blaiseli - 11
pipeline_testing -
#341 opened by Charlie-George - 6
Broken pipes
#335 opened by Acribbs - 11
- 2
gtf2gtf sorting
#328 opened by jscaber - 2
- 0
Fastq2Fastq QUAL score range bug
#299 opened by MikeDMorgan - 6
gtf2gtf.py failing tests locally
#289 opened by nickilott - 4
Installation issue
#263 opened by JunHuang023 - 1
- 3
Installation issue
#256 opened by tallulandrews - 6
Extend BED interval to specific size
#247 opened by MikeDMorgan - 2
- 1
Trouble installing CGAT on BioLinux Ubuntu 14.04
#240 opened by alvizain786 - 5
Fails to install
#251 opened by nuin - 8
Building 0.2.4on osx using pip fails
#244 opened by breichholf - 4
Error when trying to install cgat via pip
#246 opened by tiagobrc - 5
pysam 0.8.4 not working
#250 opened by pescobar - 1
gtf2gtf.py --merge-transcripts name hardcoded
#238 opened by MikeDMorgan - 3
testing asana integration
#231 opened by TomSmithCGAT - 6
compilation error after lastest pull
#232 opened by IanSudbery - 2
gtf2gtf.py
#226 opened by AndreasHeger