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fhcrc
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deenurp
16S rRNA gene sequence curation and phylogenetic reference set creation
GNU General Public License v3.0
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Workflow update
#78
crosenth
closed
4 months ago
0
hdbscan version bump, py3 fixes for 'deduplicate' subcommand
#77
dhoogest
closed
1 year ago
0
Docker build issue related to hbdscan
#76
dhoogest
closed
1 year ago
2
Bump scipy from 1.8.0 to 1.10.0
#75
dependabot[bot]
closed
4 months ago
1
update to use taxtastic 0.10.0
#74
nhoffman
opened
1 year ago
0
Verify README and Wiki are up-to-date
#73
crosenth
opened
1 year ago
0
Bump joblib from 1.1.0 to 1.2.0
#72
dependabot[bot]
closed
4 months ago
1
070 python3
#71
crosenth
closed
2 years ago
0
python3 support
#70
nhoffman
opened
3 years ago
2
filter_outliers should retain outlier alleles if other alleles are not outliers
#69
nhoffman
opened
5 years ago
0
fixes error undefined symbol: PyFPE_jbuf
#68
crosenth
opened
5 years ago
0
Replace peasel
#67
crosenth
closed
5 years ago
0
Remove Peasel dependency
#66
crosenth
closed
4 years ago
2
Add filter_outliers --tax_ids option to rare taxa argparse group
#65
crosenth
closed
5 years ago
2
filter_outliers fails with a strange message of a missing file
#64
ralsallaq
opened
6 years ago
4
iterative filtering in filter_outliers
#63
nhoffman
opened
6 years ago
0
Create more informative filter_outliers status messages
#62
crosenth
closed
5 years ago
1
Sminot dockerfile. Works with Singularity
#61
crosenth
closed
7 years ago
1
Add Dockerfile
#60
sminot
closed
7 years ago
1
Add as collaborator?
#59
sminot
closed
7 years ago
2
add command line option for defining outlier clusters
#58
nhoffman
opened
7 years ago
0
externally-defined criteria for keeping/dropping records
#57
nhoffman
opened
7 years ago
0
054 dereplicate refs
#56
nhoffman
closed
8 years ago
0
Warning (failure) when calculating version
#55
tyleraland
closed
8 years ago
4
add subcommand to dereplicate reference seqs
#54
nhoffman
opened
8 years ago
0
setup.py missing install_requires dependencies
#53
crosenth
closed
6 years ago
0
048 deduplicate and filter
#52
crosenth
closed
8 years ago
0
replace uclust, update boostrap.sh
#51
nhoffman
closed
8 years ago
0
pandas warning in filter_outliers
#50
nhoffman
opened
8 years ago
4
species annotation in filtered seq_info
#49
nhoffman
opened
8 years ago
0
filter_outliers: deduplicate sequences as part of filtering operation
#48
nhoffman
opened
8 years ago
0
select_references and fill_lonely dev
#47
crosenth
closed
8 years ago
1
select_references/fill_lonely blacklists and whitelists
#46
crosenth
closed
6 years ago
1
In ncb_extract_genbank, do not output is_type column if --types is not specified
#45
crosenth
closed
6 years ago
1
New columns to ncbi_extract_sequences
#44
crosenth
closed
6 years ago
1
deenurp orientate sequences caching
#43
crosenth
closed
6 years ago
1
Consider moving is_type column creation from ncbi_extract_genbank to partion_refs
#42
crosenth
closed
6 years ago
1
infernal package does not install using bin/bootstrap.sh
#41
crosenth
closed
8 years ago
1
Think about removing references to Taxastic
#40
crosenth
closed
6 years ago
1
add --previous-details to use results from a previous run
#39
nhoffman
closed
9 years ago
0
filter_outliers: add option to skip taxids that haven't changed since a previous run
#38
nhoffman
closed
8 years ago
1
faster fill_lonely
#37
nhoffman
opened
9 years ago
0
deenurp filter-outliers dev
#36
crosenth
closed
8 years ago
1
Install makeblastdb
#35
crosenth
closed
9 years ago
1
orientate_sequences using vsearch
#34
crosenth
closed
6 years ago
5
bumping pandas compatibility to pandas 0.16.*
#33
crosenth
closed
9 years ago
1
Generalize from rdp
#32
crosenth
closed
9 years ago
0
pep 440 versioning bug
#31
crosenth
opened
9 years ago
7
Deenurp issue27
#30
crosenth
closed
9 years ago
1
tax_of_genbank returns None if organism name contains phrase uncultured bacterium
#29
crosenth
closed
9 years ago
1
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