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zavolanlab
/
zarp-cli
A user-friendly command-line interface for the ZARP RNA-seq analysis workflow
https://zavolanlab.github.io/zarp-cli/
Apache License 2.0
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docs: fix docs title
#46
uniqueg
closed
1 year ago
0
docs: fix broken/outdated badges
#45
uniqueg
closed
1 year ago
1
docs: fix broken/outdated badges
#44
uniqueg
closed
1 year ago
0
ci: automatically publish documentation on GH Pages
#43
uniqueg
closed
1 year ago
0
docs: provide API reference
#42
uniqueg
closed
1 year ago
0
docs: provide extensive documentation
#41
uniqueg
closed
1 year ago
1
docs: build & publish on GH Pages
#40
uniqueg
closed
1 year ago
1
feat: addition of local conda installation
#39
fgypas
closed
1 year ago
2
docs: refer to ZARP installation
#38
uniqueg
closed
1 year ago
1
Publish ZARP-cli on Bioconda
#37
uniqueg
closed
1 year ago
16
Use Conda for dependency management
#36
uniqueg
closed
1 year ago
2
feat: add ZARP repo path param
#35
uniqueg
closed
1 year ago
1
feat: infer missing metadata
#34
uniqueg
closed
1 year ago
0
feat: write Snakemake run config file
#33
uniqueg
closed
1 year ago
0
feat: add arg for rule config
#32
uniqueg
closed
1 year ago
0
docs: fix outdated shield links
#31
uniqueg
closed
1 year ago
1
Fix broken/outdated badges in README
#30
uniqueg
closed
1 year ago
1
feat: config & sample management
#29
uniqueg
closed
2 years ago
1
Ensembl downloads
#28
mzavolan
closed
1 year ago
2
ci: migrate to GH Actions
#27
AngryMaciek
closed
2 years ago
6
ci: move to GitHub Actions
#26
AngryMaciek
closed
2 years ago
0
feat: fetch genome resources
#25
mzavolan
closed
1 year ago
1
WIP: Clone external repositories
#24
dominikburri
closed
1 year ago
1
feat: add generic Snakemake executor
#23
dominikburri
closed
1 year ago
5
Clone repos from github
#22
dominikburri
closed
1 year ago
6
Define cli params
#21
mkatsanto
closed
2 years ago
2
Run zarp with Snakemake API
#20
dominikburri
closed
2 years ago
1
Move run specific parameters from samples.tsv to rule_config.yaml
#19
ninsch3000
closed
1 year ago
2
Integration of zarp
#18
dominikburri
closed
2 years ago
2
feat: add configuration models
#17
uniqueg
closed
3 years ago
0
Ensure compatibility between HTSinfer inferences & user input
#16
uniqueg
closed
2 years ago
1
Define run model & implement validations
#15
uniqueg
closed
2 years ago
1
Add config handler
#14
uniqueg
closed
2 years ago
1
feat: post-processing & cleanup
#13
mkatsanto
opened
3 years ago
0
feat: create Snakemake report
#12
mkatsanto
opened
3 years ago
4
feat: run ZARP workflow
#11
mkatsanto
closed
1 year ago
2
Create Snakemake run config files
#10
mkatsanto
closed
1 year ago
1
Infer missing sample parameters with HTSinfer
#9
mkatsanto
closed
2 years ago
1
Download samples from SRA
#8
mkatsanto
closed
1 year ago
5
Create list of sample model class objects
#7
mkatsanto
closed
3 years ago
1
Implement initialization routine
#6
mkatsanto
closed
2 years ago
1
feat: genome resources management
#5
mkatsanto
closed
1 year ago
3
Define sample model & implement validations
#4
mkatsanto
closed
3 years ago
0
Define user model & implement validations
#3
mkatsanto
closed
3 years ago
0
Parse & validate CLI args
#2
mkatsanto
closed
2 years ago
0
Define CLI params
#1
mkatsanto
closed
2 years ago
6
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