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epi2me-labs
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wf-single-cell
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Issue running v1.1.0 on demo dataset
#95
MaestSi
closed
6 months ago
2
Only UMAP for one sample in HTML report
#94
ddiez
closed
6 months ago
2
use of licensed conda channels
#93
trum994
closed
6 months ago
1
Isoform-level expression count matrix?
#92
sheetsvicky
opened
6 months ago
2
Request for uopdate to docker with stringtie v2.2
#91
pratarora
closed
6 months ago
1
Running multiplexed files
#90
mcortes-lopez
closed
6 months ago
1
Concerns with logic behind stringtie step
#89
kwells4
closed
7 months ago
2
is the wf-sc workflow modular?
#88
Sefi196
closed
6 months ago
1
Error executing process > 'parse_kit_metadata (1)' with singularity
#87
ktpolanski
closed
6 months ago
5
unable to download the wf-single-cell
#86
yuanwsy
closed
6 months ago
4
Very small output BAM file (wrong BAM file processed by tag_bams?)
#85
porchard
closed
6 months ago
3
Fix double-counting of genes and transcripts in report
#84
porchard
closed
7 months ago
2
cannot open input file {sample}.stringtie.gff -- Command fails for one sample but runs for others
#83
pratarora
closed
6 months ago
2
Alignment without genes.gtf
#82
JuanruMaryGuo
closed
6 months ago
1
Error executing process > 'pipeline:process_bams:combine_bams_and_tags (1)'
#81
ktpolanski
closed
6 months ago
12
Cellranger style output count matrices - sparse, raw, full gene space
#80
ktpolanski
closed
6 months ago
6
rerun generate cell whitelist without run the previous steps
#79
chenghuihui2018
closed
5 months ago
3
Wrong strandness assumed for multiome v1?
#78
iaaka
closed
6 months ago
12
pipeline:process_bams:stringtie (23)` terminated with an error exit status (143)
#77
Jason-Eigenbrood
closed
6 months ago
4
Error executing process > 'pipeline:process_bams:tag_bams (14)
#76
Jason-Eigenbrood
closed
9 months ago
5
error executing process > 'pipeline:process_bams:extract_barcodes (74) '
#75
reedmakGCB
closed
6 months ago
7
Visium config
#74
davidebolo1993
closed
9 months ago
2
All integer `UY` column breaks tag_bam.py
#73
ktpolanski
closed
9 months ago
3
"Cannot allocate memory" during stringtie
#72
ktpolanski
closed
6 months ago
5
pipeline:makeReport (1)` terminated with an error exit status (1)
#71
cihaterdogan
closed
8 months ago
12
Spiked hg38 ref aligns but does not report spike-in gene/transcript features
#70
Fractal10
closed
4 months ago
5
GFF isoform output for follow-up SQANTI3 analysis
#69
Qirongmao97
closed
8 months ago
2
Identifying full-length transcripts / adapter configuration
#68
LynnLy
closed
11 months ago
2
Concerning read assignment to gene / transcript
#67
vincenthahaut
closed
11 months ago
3
Error in add_tag
#66
irzamsarfraz
closed
10 months ago
7
provide known cell barcodes
#65
greensii
closed
9 months ago
2
stringtie.gff
#64
wanghlv
closed
9 months ago
5
Error while running stringtie step
#63
ddiez
closed
6 months ago
4
Error executing process > 'pipeline:process_bams:tag_bams'
#62
sonalhenson
closed
9 months ago
7
PCR duplicates?
#61
chilampoon
closed
9 months ago
4
Fusion Detection with JAFFAL or other
#60
danhtruong
closed
11 months ago
2
Parameters for large fastq inputs
#59
MartinezRuiz-Carlos
closed
1 year ago
2
ERROR ~ Error executing process > 'fastcat (1)' Caused by: Process `fastcat (1)` terminated with an error exit status (2)
#58
lscdanson
closed
6 months ago
22
Error executing process > 'pipeline:process_bams:stringtie (30)'
#57
danhtruong
closed
1 year ago
3
column "runid" not existed in file: fastcat_stats/per-read-stats.tsv.gz
#56
zhipengliux
closed
9 months ago
8
Compatibility for 5 prime data V2 kit
#55
chuckzzzz
closed
1 year ago
7
Error during minimap step
#54
Josephinedh
closed
6 months ago
13
The space needed to run a wf-single-cell job
#53
ZhuoLi1986
closed
1 year ago
2
Process `pipeline:align:get_chrom_sizes` terminated with an error exit status (255)
#52
ZhuoLi1986
closed
11 months ago
4
A JNI error has occurred
#51
ZhuoLi1986
closed
1 year ago
2
ERROR: calc_saturation.py unexpected keyword 'frac'
#50
suegrimes
closed
1 year ago
2
Problem using --single_cell_sample_sheet
#49
ddiez
closed
1 year ago
11
'pipeline:prepare_report_data (1)' failed
#48
HAH112
closed
1 year ago
5
ERROR: (numba) unable to cache 'rdist'
#47
suegrimes
closed
1 year ago
23
ERROR ~ Error executing process > 'pipeline:getParams'
#46
scarlettcanny
closed
1 year ago
6
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