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Mayrlab
/
scUTRquant
Bioinformatics pipeline for single-cell 3' UTR isoform quantification
https://Mayrlab.github.io/scUTRquant
GNU General Public License v3.0
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Batch integration / Sample normalisation
#97
MathieuBo
opened
4 days ago
1
Update barcode whitelist for multiome support
#96
MathieuBo
closed
1 week ago
1
Number of detected cells much lower than expected
#95
MathieuBo
closed
1 week ago
5
rowRanges of SingleCellExperiment output don't give 3'UTR coordinates
#94
frstyang
opened
1 month ago
4
Negative 3'UTR lengths
#93
Apistogramma-2
opened
3 months ago
2
Kallisto Bus doesn't give output
#92
rbarbieri86
closed
5 months ago
5
Update tidyselect syntax
#91
mfansler
opened
6 months ago
0
Adds support for H5AD (AnnData) output
#90
mfansler
closed
6 months ago
0
Update Rmd and add version
#89
mfansler
closed
6 months ago
0
Capture scUTRquant version number in the code
#88
mfansler
closed
6 months ago
0
Milestone v0.5.0
#87
mfansler
closed
6 months ago
0
bump to R 4.3, Bioc 3.18
#86
mfansler
closed
6 months ago
0
Update Rmd formatting and theming
#85
mfansler
closed
6 months ago
0
Bump environments to R 4.3 and Bioconductor 3.18
#84
mfansler
closed
6 months ago
0
Support Snakemake 8
#83
mfansler
closed
6 months ago
0
Milestone v0.4.1
#82
mfansler
closed
6 months ago
0
Update README
#81
mfansler
closed
6 months ago
0
Update annotations
#80
mfansler
closed
6 months ago
0
Expand annotations to include MWS and Atlas summaries
#79
mfansler
closed
6 months ago
0
update docker image
#78
mfansler
closed
6 months ago
0
Example runs with `--use-singularity` fail on R-related tasks
#77
jpintar
closed
6 months ago
9
Downloading scripts fail
#76
jpintar
closed
7 months ago
2
Update download_10X_whitelists.sh
#75
jpintar
closed
7 months ago
0
Update gh-pages
#74
mfansler
opened
7 months ago
0
Document scUTRquant-inputs
#73
mfansler
closed
6 months ago
1
Custom 3'utr
#72
aleighbrown
opened
8 months ago
1
Snakemake v8.0 introduced breaking API changes
#71
mfansler
closed
6 months ago
0
Version 0.4.0
#70
mfansler
closed
10 months ago
1
Barcodes download broken
#69
mfansler
closed
10 months ago
0
Integrate downloading
#68
mfansler
closed
10 months ago
0
Declare minimum Snakemake version
#67
mfansler
closed
10 months ago
0
Avoid `sample_id` collision
#66
mfansler
closed
10 months ago
0
Error when running the pbmc_1k_v3_fastq example: "No values given for wildcard 'target'."
#65
ainefairbrother
closed
1 year ago
3
handle `sample_id` in cell annotations
#64
mfansler
closed
10 months ago
0
Export Option: AnnData
#63
mfansler
closed
6 months ago
1
Add support for alevin backend
#62
mfansler
opened
1 year ago
0
Error: package 'GenomeInfoDb' could not be loaded
#61
lisafournier
closed
2 years ago
4
using scUTRboot to calculate LUI
#60
rhea9184
opened
2 years ago
4
Filter to annotated cells
#59
mfansler
closed
10 months ago
0
Support parallelized MTX loading
#58
mfansler
closed
2 years ago
0
Parallelized MTX Loading
#57
mfansler
closed
2 years ago
0
Add HDF5 support
#56
mfansler
closed
2 years ago
0
Scaling to large datasets
#55
mfansler
closed
2 years ago
0
resolves #53
#54
mfansler
closed
2 years ago
0
Empty `cell_annots` broken
#53
mfansler
closed
2 years ago
0
basic annotations
#52
mfansler
closed
2 years ago
0
snakemake all the things
#51
mfansler
closed
10 months ago
0
update local
#50
mfansler
closed
2 years ago
0
resolves #48
#49
mfansler
closed
2 years ago
0
Add Mouse UTRome v2
#48
mfansler
closed
2 years ago
0
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