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CCBR
/
RENEE
A comprehensive quality-control and quantification RNA-seq pipeline
https://CCBR.github.io/RENEE/
MIT License
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rNA report VOOM error with test data
#80
kopardev
closed
10 months ago
5
set default --tmp-dir depending on HPC platform
#79
kelly-sovacool
closed
10 months ago
5
feat: set fastq screen & kraken db shared resource paths depending on HPC
#78
kelly-sovacool
closed
10 months ago
2
chore: add pre-commit hook to validate JSON files
#77
kelly-sovacool
closed
10 months ago
0
chore: update changelog with note for v2.5.10
#76
kelly-sovacool
closed
10 months ago
0
add pre-commit hook to validate JSON files
#75
kelly-sovacool
closed
10 months ago
0
bugfix: adding missing commas; updating VERSION
#74
kopardev
closed
10 months ago
1
CI: fix dryrun action
#73
kelly-sovacool
closed
10 months ago
1
`cluster.json` bug in v2.5.9
#72
kopardev
closed
10 months ago
1
ci: delete sync-fork action
#71
kelly-sovacool
closed
11 months ago
1
ci: update sync-fork action permissions
#70
kelly-sovacool
closed
11 months ago
0
chore: bump dev version
#69
kelly-sovacool
closed
11 months ago
0
chore: increase time for kraken,bbmerge rules
#68
kelly-sovacool
closed
11 months ago
0
Large files are timing out for `bbmerge` and `kraken` rules
#67
slsevilla
closed
11 months ago
0
RENEE errors when attempting to deploy from git clone
#66
slsevilla
closed
10 months ago
4
Check spacesavers output for `/data/CCBR_Pipeliner`
#65
kopardev
closed
10 months ago
1
biowulf-specific mount paths do not work on FRCE
#64
kelly-sovacool
closed
10 months ago
0
rule: rna_report; failure when running test data
#63
slsevilla
closed
11 months ago
3
Install v2.5.8 on FRCE
#62
kelly-sovacool
closed
11 months ago
0
chore: create PR template
#61
kelly-sovacool
closed
11 months ago
0
fix pre-commit config
#60
kelly-sovacool
closed
11 months ago
0
single-end missing input exception in rule all
#59
kelly-sovacool
closed
11 months ago
0
fix bugs in single-end rules
#58
kelly-sovacool
closed
11 months ago
0
document single-end usage
#57
kelly-sovacool
closed
11 months ago
1
typo in single-end.smk
#56
kelly-sovacool
closed
11 months ago
0
fix: use container from nciccbr for multiqc
#55
kelly-sovacool
closed
11 months ago
0
Shared resource path outside git repo
#54
kelly-sovacool
closed
10 months ago
3
Use shared singularity cache dir on biowulf and frce
#53
kelly-sovacool
closed
3 months ago
3
singularity pull rate limit
#52
kelly-sovacool
closed
11 months ago
2
error in multiqc -- KeyError: 'No metadata except PKG-INFO is available'
#51
kelly-sovacool
closed
10 months ago
18
Buildfix
#50
kopardev
closed
1 year ago
0
Supported genome help
#49
kopardev
closed
1 year ago
0
build ... add wait option
#48
kopardev
closed
1 year ago
0
builder hpc name issue
#47
kopardev
closed
1 year ago
0
build issue
#46
kopardev
closed
1 year ago
0
build not working with v2.5.5
#45
kopardev
closed
1 year ago
0
Buildfix
#44
kopardev
closed
1 year ago
0
Issue 42
#43
kopardev
closed
1 year ago
0
use different `spooker` and `jobby`
#42
kopardev
closed
1 year ago
0
hotfix: fix #40
#41
kopardev
closed
1 year ago
0
Prebuilt genomes not loading correctly
#40
kopardev
closed
1 year ago
0
Only overwrite config if runmode==init or config doesn't exist
#39
kelly-sovacool
closed
1 year ago
0
doc: create documentation for GUI
#38
kopardev
closed
3 months ago
4
Fix/extracolon
#37
kopardev
closed
1 year ago
0
create VERSION file
#36
kopardev
closed
1 year ago
0
`spooker` does not run
#35
kopardev
closed
1 year ago
0
`config.json` should only be generated if it doesnt exist
#34
kopardev
closed
1 year ago
2
NameError in Snakefile: name 'json' is not defined
#33
samarth8392
closed
1 year ago
1
Feature: add dupradar
#32
kopardev
opened
1 year ago
1
Feature: add sortmerna to remove rRNA reads prior to alignment
#31
kopardev
opened
1 year ago
0
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