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rbturnbull
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orthoflow
Orthoflow is a workflow for phylogenetic inference of genome-scale datasets of protein-coding genes.
https://rbturnbull.github.io/orthoflow/
Apache License 2.0
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Pilot
#89
rbturnbull
closed
5 months ago
0
add treespace？
#88
deyuanyang
opened
7 months ago
0
Tee
#87
rbturnbull
closed
8 months ago
0
allow for gz and bz2 input files.
#86
rbturnbull
opened
9 months ago
0
parallelize input validation checks
#85
rbturnbull
opened
9 months ago
0
Lowercase
#84
rbturnbull
closed
9 months ago
0
Andy
#83
rbturnbull
closed
10 months ago
0
Pelle
#82
rbturnbull
closed
1 year ago
0
Release
#81
rbturnbull
closed
1 year ago
0
Protein
#80
rbturnbull
closed
1 year ago
0
Hpc
#79
rbturnbull
closed
1 year ago
0
Intake
#78
rbturnbull
closed
1 year ago
0
Add logs
#77
vinisalazar
closed
1 year ago
1
Orthofinder dev
#76
rbturnbull
closed
1 year ago
0
Run test datasets on SLURM scheduler
#75
vinisalazar
closed
10 months ago
0
Add logs
#74
vinisalazar
closed
1 year ago
0
CLI info for docs
#73
rbturnbull
opened
2 years ago
0
mark temporary files for deletion
#72
rbturnbull
closed
8 months ago
0
report fail
#71
hverbruggen
closed
10 months ago
1
Summarize info content
#70
rbturnbull
closed
2 years ago
0
recreation of dag incorrect
#69
rbturnbull
closed
1 year ago
0
add_taxon.py issue
#68
hverbruggen
closed
1 year ago
1
orthofisher_hmmer_files
#67
hverbruggen
opened
2 years ago
0
Summarize info content + report
#66
rbturnbull
closed
2 years ago
0
Summarize info content
#65
rbturnbull
closed
2 years ago
0
Use Snakedoc to autogenerate rule docs
#64
smutch
closed
2 years ago
0
option to stop at alignments without phylogenetic inference
#63
hverbruggen
closed
2 years ago
1
Supertree
#62
JLSteenwyk
closed
2 years ago
0
Gene tree inference
#61
rbturnbull
closed
2 years ago
0
Trimming
#60
rbturnbull
closed
2 years ago
0
user argument for bootstrapping method
#59
hverbruggen
closed
2 years ago
2
IQtree -redo behaviour
#58
hverbruggen
opened
2 years ago
0
Revert conda-lock use
#57
smutch
closed
10 months ago
0
fixed orthofinder scog filter
#56
JLSteenwyk
closed
2 years ago
1
Orthofisher
#55
rbturnbull
closed
2 years ago
0
Add input file config
#54
vinisalazar
closed
2 years ago
1
implement extract_orthofisher_scogs
#53
hverbruggen
opened
2 years ago
0
test on windows and gather issues found
#52
hverbruggen
opened
2 years ago
1
file naming conventions
#51
hverbruggen
closed
8 months ago
0
Orthofisher
#50
rbturnbull
closed
2 years ago
0
investigate disk usage efficiency
#49
hverbruggen
closed
10 months ago
0
make order of input/output uniform across workflow
#48
hverbruggen
closed
8 months ago
0
input sources verification
#47
hverbruggen
closed
1 year ago
1
Add `input_sources` setting to config
#46
vinisalazar
closed
2 years ago
1
ortholog choice for users
#45
JLSteenwyk
closed
2 years ago
1
:zap: add lock files for conda envs
#44
smutch
closed
2 years ago
1
Pin conda environments
#43
smutch
closed
2 years ago
0
Remove test-data from git repo
#42
smutch
closed
2 years ago
5
:cop: Move to pytest fixtures for running snakemake in tests
#41
smutch
closed
2 years ago
1
adding quality control for alignments
#40
JLSteenwyk
closed
2 years ago
3
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