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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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Suggestion: change to IQTree command
#39
JLSteenwyk
closed
2 years ago
1
linking orthofisher to alignment module
#38
JLSteenwyk
closed
2 years ago
1
update names of translated cds files
#37
JLSteenwyk
opened
2 years ago
0
summarize information content of alignments
#36
JLSteenwyk
closed
2 years ago
1
trimming step missing from workflow
#35
JLSteenwyk
closed
2 years ago
1
orthofisher feature
#34
JLSteenwyk
closed
10 months ago
0
add installation instructions to docs
#33
JLSteenwyk
closed
10 months ago
2
:bug: Account for orthogroups with no snap-ogs found
#32
smutch
closed
2 years ago
2
Fix orthosnap usage
#31
smutch
closed
2 years ago
0
Connect up the orthosnap stuff
#30
smutch
closed
2 years ago
0
Add HTML reports to workflow
#29
rbturnbull
closed
2 years ago
1
Multiple sequences with the same taxon name in ortholog files breaks supermatrix concatenation
#28
rbturnbull
closed
2 years ago
1
Merge branch 'tests' into 'master'
#27
vinisalazar
closed
2 years ago
0
Bibtex
#26
rbturnbull
closed
2 years ago
0
Swap out gbseqextractor for custom script
#25
smutch
closed
2 years ago
0
Add a Typer driven CLI with passthrough of unknown arguments to Snakemake
#24
smutch
closed
2 years ago
0
Refactor docs
#23
vinisalazar
closed
2 years ago
1
Create / update test-data
#22
smutch
closed
2 years ago
9
Fix orthofinder and filter_orthofinder rules
#21
smutch
closed
2 years ago
5
speed up filter_orthofinder.py script
#20
smutch
closed
2 years ago
1
identify case studies
#19
rbturnbull
closed
1 year ago
0
Bibtex
#18
rbturnbull
closed
2 years ago
0
Draft LaTeX doc
#17
rbturnbull
closed
1 year ago
0
choose journal
#16
rbturnbull
closed
1 year ago
2
git emoji convention?
#15
rbturnbull
closed
2 years ago
0
Add code of conduct to CONTRIBUTING.rst
#14
rbturnbull
closed
2 years ago
0
Our own executable
#13
rbturnbull
closed
2 years ago
0
reconciliation module
#12
rbturnbull
closed
2 years ago
1
gene tree module
#11
rbturnbull
closed
2 years ago
0
Fishing stream orthologs module
#10
rbturnbull
closed
2 years ago
0
sphinx plugin for reading docstrings
#9
rbturnbull
closed
2 years ago
1
supermatrix module tests
#8
rbturnbull
closed
2 years ago
1
alignment module tests
#7
rbturnbull
closed
2 years ago
1
de novo ortholog module tests
#6
rbturnbull
closed
2 years ago
1
ddrad component
#5
rbturnbull
closed
1 year ago
1
no orthologs in test data?
#4
rbturnbull
closed
2 years ago
2
citation management
#3
rbturnbull
closed
1 year ago
0
Choose a name
#2
rbturnbull
closed
1 year ago
7
Restructure code and add formatting/linting/editorconfig
#1
smutch
closed
2 years ago
0
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