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Arcadia-Science
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noveltree
NovelTree is a highly parallelized and computationally efficient phylogenomic workflow that infers gene families, gene family trees, species trees, and gene family evolutionary history.
GNU Affero General Public License v3.0
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Intermediate file compression and/or storage utilization forecasting
#103
joaobilro
opened
1 month ago
0
Alignment process is failing
#102
mliannholland
opened
2 months ago
0
Remove extraneous, broken UniProt annotations
#101
austinhpatton
closed
2 months ago
0
Error running COGEQC with the provided test dataset
#100
mliannholland
closed
2 months ago
2
singularity container support
#99
mliannholland
opened
8 months ago
1
External Species Tree and AleRax
#98
Alexggo
opened
8 months ago
1
singularity implementation
#97
giacomomutti
closed
9 months ago
1
Error executing process > 'NOVELTREE:INPUT_CHECK:SAMPLESHEET_CHECK (tsar_downsamp_test_samplesheet.csv)'
#96
bioinfowheat
opened
1 year ago
1
Apptainer instead of Docker as an option
#95
jsoghigian
closed
9 months ago
1
Updated ClipKIT from version 1.3.0 to 2.1.1 to allow performance boost
#94
JLSteenwyk
closed
10 months ago
2
Implement AleRax
#93
austinhpatton
opened
1 year ago
0
Stage fasta files to match samplesheet species names
#92
austinhpatton
opened
1 year ago
0
Ap/fix schema
#91
austinhpatton
closed
1 year ago
0
Dynamic scaling of compute specifications for GeneRax
#90
austinhpatton
opened
1 year ago
0
Implement WITCH-NG
#89
austinhpatton
opened
1 year ago
0
Replace BUSCO with compleasm (as default)
#88
austinhpatton
opened
1 year ago
0
Build in key workflow output summarization features to wokflow
#87
austinhpatton
opened
1 year ago
0
remove xref_tigrfam field
#86
austinhpatton
closed
1 year ago
1
Ap/updated dags
#85
austinhpatton
closed
1 year ago
0
Ap/sppid protid delim
#84
austinhpatton
opened
1 year ago
1
Allow the mcl_inflation parameter to be a string or single numerical value.
#83
neevor
closed
1 year ago
2
Final overview of the pipeline + minor fixes
#82
mertcelebi
closed
1 year ago
0
I have altered the version, pray I don't alter it any further
#81
mertcelebi
closed
1 year ago
0
Update all Docker image versions with a consistent naming scheme
#80
mertcelebi
closed
1 year ago
0
Get the right semantic version
#79
mertcelebi
closed
1 year ago
0
Ap/readmes
#78
austinhpatton
closed
1 year ago
1
Rename everything to NovelTree
#77
mertcelebi
closed
1 year ago
0
resolve use of "none" vs null as parameters
#76
austinhpatton
opened
1 year ago
0
Before we publish this, let's make sure we use the right semantic versioning to signify that this is still an early-stage/experimental product
#75
mertcelebi
closed
1 year ago
0
Not all Uniprot annotations are downloaded...
#74
mezarque
opened
1 year ago
0
Subworkflow to look for long-range HGT
#73
austinhpatton
opened
1 year ago
0
Ap/witch
#72
mertcelebi
closed
1 year ago
0
tower respec
#71
austinhpatton
closed
1 year ago
0
Tower respec
#70
mertcelebi
closed
1 year ago
0
process respec
#69
austinhpatton
closed
1 year ago
0
Ap/clean compress subdirs
#68
austinhpatton
closed
1 year ago
0
Update filter for speciesrax w/ slight steak (tweak) to how speciesrax and generax arerun
#67
austinhpatton
closed
1 year ago
0
Ap/vft to ft
#66
austinhpatton
closed
1 year ago
0
improved, descriptive publishdir names
#65
austinhpatton
closed
1 year ago
0
Ap/clipkit fix
#64
austinhpatton
closed
1 year ago
0
Built module, dockerfile for VeryFastTree
#63
austinhpatton
closed
1 year ago
0
separated iqtree and iqtree_pmsf, made run of iqtree_pmsf conditional on param spec
#62
austinhpatton
closed
1 year ago
0
Ap/magus
#61
austinhpatton
closed
1 year ago
1
CIAlign module for alignment trimming
#60
austinhpatton
closed
1 year ago
0
Fix the base image usage for the r-based Dockerfiles
#59
mertcelebi
closed
1 year ago
0
speciesrax -> process_generax
#58
austinhpatton
closed
1 year ago
0
leave spp headers unchanged when reading in og counts
#57
austinhpatton
closed
1 year ago
0
fix for shallow scale
#56
austinhpatton
closed
1 year ago
0
Ap/uniprotws fix
#55
austinhpatton
closed
1 year ago
0
Fmc/docker cleanup
#54
mertcelebi
closed
1 year ago
0
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