issues
search
nunofonseca
/
irap
integrated RNA-seq Analysis Pipeline
GNU General Public License v3.0
82
stars
33
forks
source link
issues
Newest
Newest
Most commented
Recently updated
Oldest
Least commented
Least recently updated
Configuration file for strand specific protocol
#108
lissur
opened
2 years ago
0
iRAP pipeline for EMBL-EBI Expression Atlas
#107
lissur
opened
4 years ago
1
Downloads to a submodule?
#106
pinin4fjords
opened
5 years ago
0
Simplify SC preprocessing
#105
pinin4fjords
closed
4 years ago
2
fastq_pre_barcodes.c:34:17: fatal error: bam.h: No such file or directory
#104
jianglinghan
opened
5 years ago
0
Fix bafflingly introduced typos, do not enforce integer status
#103
pinin4fjords
closed
5 years ago
0
sample name do not match
#102
sb43
opened
5 years ago
0
aux/R/irap_de.R::process.cmdline.args mis-casts --min (opt$min_count) as a string, should be integer
#101
vviyer
closed
5 years ago
1
modified gnu file open in irap_core.mk to shell cat
#100
sb43
closed
5 years ago
2
No rule to make target
#99
sb43
closed
5 years ago
1
docker image 1.0.1 not working
#98
sb43
closed
5 years ago
1
Add novel splices to output file lists with HISAT2
#97
pinin4fjords
closed
4 years ago
0
docker image for v1.0.1
#96
kathryn-beal
closed
5 years ago
2
Don't make matrices at top quant level for non-sc data
#95
pinin4fjords
closed
5 years ago
0
Fix typo in irap_single_lib2report
#94
pinin4fjords
closed
5 years ago
0
Add explict -x for hisat index prefix
#93
pinin4fjords
closed
5 years ago
0
Deal with unpredictable index extensions from HISAT2
#92
pinin4fjords
closed
5 years ago
0
Change FEATURECOUNTS to FeatureCounts where appropriate
#91
pinin4fjords
closed
5 years ago
0
Restore coordinate-sorted bam output
#90
pinin4fjords
closed
5 years ago
0
Proper paired-end behaviour for featureCounts
#89
pinin4fjords
closed
5 years ago
0
Fix duplicate exon error for featureCounts
#88
pinin4fjords
closed
5 years ago
0
iRAP does not recognise stage0 completion for large genomes with HISAT2
#87
pinin4fjords
closed
5 years ago
5
Fix to retain Number of reads
#86
pinin4fjords
closed
5 years ago
0
Sort before genomecov
#85
pinin4fjords
closed
5 years ago
2
Aggregation issues
#84
pinin4fjords
closed
5 years ago
0
Reflect change in config file location
#83
pinin4fjords
closed
5 years ago
0
Locate manual download folder at same level as raw data download used…
#82
pinin4fjords
closed
5 years ago
0
Remove technical replicate group as a compulsory column
#81
pinin4fjords
closed
5 years ago
0
Increase memory for sdrf_control processes
#80
pinin4fjords
closed
5 years ago
0
Sc3 column names
#79
pinin4fjords
closed
5 years ago
0
Better version use
#78
pinin4fjords
closed
4 years ago
0
sh: 1: set: Illegal option -o pipefail error in "irap_gtf_to_fasta".
#77
shrho
closed
5 years ago
4
Deal with the case of a single single-cell SDRF
#76
pinin4fjords
closed
6 years ago
0
Prevent irap_sdrf2conf from dropping metadata dimensions
#75
pinin4fjords
closed
6 years ago
0
Fix sc3
#74
pinin4fjords
closed
5 years ago
0
Add spike consideration and tidy
#73
pinin4fjords
closed
5 years ago
0
Allow for NAs as empty values in technical replicate column
#72
pinin4fjords
closed
6 years ago
0
Allow 3D t-SNE plot
#71
pinin4fjords
closed
6 years ago
2
Recognise no spikes
#70
pinin4fjords
closed
5 years ago
0
Fix bug in fasta from gtf with spikes
#69
pinin4fjords
closed
5 years ago
0
Kallisto: handle fragment length better
#68
pinin4fjords
closed
5 years ago
1
iRAP's Kallisto call seems to provide read length at fragment size parameter
#67
pinin4fjords
closed
5 years ago
1
Allow a Kallisto-specific threads parameter (deterministic output)
#66
pinin4fjords
closed
5 years ago
0
Added fix for case where no mappings exist to contamination indices
#65
pinin4fjords
closed
6 years ago
0
Parameterise perplexity and increase maximum
#64
pinin4fjords
closed
6 years ago
0
Simplify paths
#63
pinin4fjords
closed
5 years ago
0
Fix issue due to sudo'd users not having write permission to /dev/stderr
#62
pinin4fjords
closed
5 years ago
2
Move scater and SC3 downgrade to end so they don't get re-upgraded
#61
pinin4fjords
closed
6 years ago
0
Error running Docker image
#60
larsgtoicr
closed
5 years ago
2
Docker link in wiki is wrong
#59
larsgtoicr
closed
6 years ago
1
Next