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zavolanlab
/
htsinfer
Infer metadata for your downstream analysis straight from your RNA-seq data
Apache License 2.0
9
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22
forks
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Error using zarp-cli
#167
MSaadfarooq
opened
1 month ago
1
perf: update regex for seqid
#166
balajtimate
closed
1 month ago
1
fix: seqid with dash not matching regex
#165
balajtimate
closed
1 month ago
0
build: add data dir to MANIFEST.in
#164
balajtimate
closed
5 months ago
2
build: create data package
#163
balajtimate
closed
5 months ago
3
refactor: pre-release cleanup
#162
balajtimate
closed
5 months ago
1
feat: improve lib type inference for SRA PE samples
#161
balajtimate
closed
5 months ago
1
feat: improve lib type relationship inference for SRA samples
#160
balajtimate
closed
5 months ago
3
feat: sort alignments by read name
#159
balajtimate
opened
5 months ago
0
refactor: reduce memory usage of comparing alignments
#158
balajtimate
opened
5 months ago
0
fix: infer library type relationship
#157
balajtimate
closed
5 months ago
3
Package and document analysis code
#156
uniqueg
opened
6 months ago
1
Create overview figure panel
#155
uniqueg
closed
5 months ago
8
Create dataset overview tables
#154
uniqueg
closed
5 months ago
1
feat: only map when lib source is given, argument to force mapping otherwise
#153
balajtimate
closed
5 months ago
1
fix: correctly infer read stats from second mate
#152
balajtimate
closed
7 months ago
1
Compare inferred read length statistics to SRA metadata
#151
balajtimate
closed
7 months ago
1
fix: add processed sample paths to mapping
#150
balajtimate
closed
7 months ago
4
bug: STAR using uncompressed sample files when mate relationship is not
#149
balajtimate
closed
7 months ago
0
feat: set default for records
#148
balajtimate
closed
7 months ago
3
feat: add tax_id parameter
#147
balajtimate
closed
7 months ago
1
fix: update Pydantic version
#146
balajtimate
closed
7 months ago
1
Publish HTSinfer on Bioconda
#145
uniqueg
closed
5 months ago
1
Unexpected errors throw same status code as warnings
#144
uniqueg
closed
10 months ago
0
Dockerfile does not make use of Conda environment
#143
uniqueg
closed
10 months ago
0
Conda-based Dockerfile & new exit status for unexpected errors
#142
uniqueg
closed
10 months ago
1
Fix bugs
#141
uniqueg
closed
10 months ago
1
Pydantic 2.0 is not supported
#140
uniqueg
closed
10 months ago
0
Correctly set supported Python versions
#139
uniqueg
closed
10 months ago
0
Warnings potentially override error state
#138
uniqueg
closed
10 months ago
0
fix: add default to path_2_processed arg
#137
balajtimate
closed
10 months ago
1
test: update ci ref on docker publish
#136
balajtimate
closed
10 months ago
1
Ci test
#135
balajtimate
closed
10 months ago
1
test: update ci ref on docker publish
#134
balajtimate
closed
10 months ago
1
feat: infer additional statistics from read lengths
#133
balajtimate
closed
10 months ago
1
Expand inferred read length stats
#132
balajtimate
closed
10 months ago
0
refactor: avoid duplicate mappings
#131
BorisYourich
closed
9 months ago
10
Create Mapping class for managing STAR cmd and outputs
#130
BorisYourich
closed
9 months ago
0
feat: infer lib type if mate info not in seq IDs
#129
BorisYourich
closed
1 year ago
5
ci: publish Docker image
#128
balajtimate
closed
1 year ago
1
feat: push docker image in ci
#127
balajtimate
closed
1 year ago
1
feat: automatically push docker image in CI workflow
#126
balajtimate
closed
1 year ago
1
perf: optimize STAR memory usage and read orientation defaults
#125
balajtimate
closed
1 year ago
1
perf: optimize read layout inference and defaults
#124
balajtimate
closed
1 year ago
1
chore: configure GitHub Codespaces for this project
#123
AngryMaciek
closed
1 year ago
4
perf: remove duplicate adapter fragments
#122
balajtimate
closed
1 year ago
1
Remove similar adapters to increase frequency ratio
#121
balajtimate
closed
1 year ago
3
GitHub Actions takes hours
#120
uniqueg
closed
1 year ago
0
ci: downgrade Cutadapt & silence warning
#119
uniqueg
closed
1 year ago
1
Test warning for deprecated Pandas feature
#118
uniqueg
closed
1 year ago
0
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