maxplanck-ie nanoporeReads_dataTransfer issues

maxplanck-ie / nanoporeReads_dataTransfer

A pipeline to transfer the Nanopore reads to end users

MIT License

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issues

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Added GRCm39 and GRCh37

#184 gerikson closed 5 days ago
0
Add all parkour organisms

#183 gerikson opened 2 weeks ago
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Added communication for when no reference genome is found and SampleSheet from parkour

#182 gerikson closed 3 weeks ago
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add QC reports for RNAseq post-alignment

#181 caballero opened 2 months ago
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retrieve SampleSheet.csv from Parkour

#180 caballero closed 3 weeks ago
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pre-commit hooks CI autoupdate

#179 pre-commit-ci[bot] closed 2 months ago
0
Minor integration for v2.0.6

#178 caballero closed 3 months ago
1
Bug transfer dir exists

#177 caballero closed 3 months ago
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avoiding yes/no and true/false for flags as python/bash eval problems

#176 caballero closed 3 months ago
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creating the transfer/proj/Analysis dir if needed

#175 caballero closed 3 months ago
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fix for bash variable context

#174 caballero closed 3 months ago
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reports omitted to end user

#173 WardDeb opened 3 months ago
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merge formatting & pre-commit CI

#172 adRn-s closed 3 months ago
0
fixing error in variable comparison for Bash command

#171 caballero closed 3 months ago
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Bug barcode print error

#170 caballero closed 3 months ago
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added snakefmt

#169 adRn-s closed 4 months ago
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Develop

#168 adRn-s closed 4 months ago
0
apply precommit

#167 adRn-s closed 4 months ago
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sabatical

#166 adRn-s closed 4 months ago
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small adjustments (these were misssing before)

#165 adRn-s closed 4 months ago
0
small adjustments (again)

#164 adRn-s closed 4 months ago
0
New sabbatical

#163 adRn-s closed 4 months ago
0
small adjustments

#162 adRn-s closed 4 months ago
0
adding flowcell/pod5 as another pod dir

#161 caballero closed 5 months ago
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Updates pr149

#160 caballero closed 5 months ago
0
QC reports is not exporting

#159 caballero closed 5 months ago
1
Updates pr149

#158 caballero closed 5 months ago
0
keeping subsampled files for debug

#157 caballero closed 5 months ago
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multithreading for pod5

#156 caballero closed 5 months ago
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updating pod5 tooling

#155 caballero closed 5 months ago
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missing comma for porechop subset params

#154 caballero closed 5 months ago
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missing comma for bam params

#153 caballero closed 5 months ago
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Updates pr149

#152 caballero closed 5 months ago
0
porechop struggling with large files

#151 caballero closed 6 months ago
1
check if the directory exists before creating

#150 caballero closed 2 months ago
1
Develop

#149 caballero closed 4 months ago
0
Updates in base code

#148 caballero closed 6 months ago
0
incorrect top species in report

#147 caballero closed 2 months ago
1
copy - permissions

#146 WardDeb opened 7 months ago
0
pytests

#145 WardDeb opened 8 months ago
0
Extract dorado version

#144 caballero closed 7 months ago
1
get_latest seqdir enhancement

#143 WardDeb opened 8 months ago
0
promethion ready - checklist

#142 WardDeb closed 2 months ago
2
porechop memory footprint

#141 WardDeb closed 2 months ago
1
dorado aligner

#140 WardDeb opened 9 months ago
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make basecalling optional

#139 WardDeb closed 2 months ago
1
modbam2bed - optional

#138 WardDeb closed 2 months ago
1
GPU check > 10GB, not 20 to accomodate V100s

#137 WardDeb closed 8 months ago
0
update ship_qcreport()

#136 thomasmanke closed 9 months ago
0
Fix ship_qcreports

#135 thomasmanke closed 9 months ago
0