caporaso-lab genome-sampler issues

caporaso-lab / genome-sampler

https://caporasolab.us/genome-sampler/

BSD 3-Clause "New" or "Revised" License

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issues

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DOC: update instructions to install release version

#50 gregcaporaso closed 4 years ago
2
NEW: Begin adding label_seqs

#49 Oddant1 closed 4 years ago
12
summarize-selections improvements

#48 gregcaporaso opened 4 years ago
0
support filtering of context sequences without metadata

#47 gregcaporaso closed 4 years ago
1
adds citation information

#46 gregcaporaso closed 4 years ago
0
filter context sequences with ids that are not in metadata

#45 gregcaporaso closed 4 years ago
0
IMP: reduce runtime of sample-diversity

#44 gregcaporaso closed 4 years ago
1
dereplicate context sequences in sample_diversity

#43 gregcaporaso closed 4 years ago
1
IMP: more robust GISAID parsing

#42 gregcaporaso closed 4 years ago
0
handle ? and U characters in GISAID format files

#41 gregcaporaso closed 4 years ago
1
DOC: missing word in install directions

#40 thermokarst closed 4 years ago
1
BUG: fix handling of missing data

#39 ebolyen closed 4 years ago
0
MAINT: minor changes to tutorial/snakefile

#38 ebolyen closed 4 years ago
0
MAINT: rename tutorial; wrap long lines

#37 thermokarst closed 4 years ago
1
tutorial modifications

#36 gregcaporaso closed 4 years ago
0
DOC: fix typo

#35 gregcaporaso closed 4 years ago
1
adds tutorial

#34 gregcaporaso closed 4 years ago
1
API: summarize-selection -> summarize-selections

#33 ebolyen closed 4 years ago
0
IMP: update snakemake to use new viz, split param

#32 ebolyen closed 4 years ago
1
add action for importing sequences from NCBI

#31 gregcaporaso opened 4 years ago
1
DOC: add prelim install instructions

#30 ebolyen closed 4 years ago
0
vsearch actions need different percent_id parameters in Snakemake

#29 gregcaporaso closed 4 years ago
0
API: sample-longitudinal now takes optional context seqs

#28 gregcaporaso closed 4 years ago
0
adds combine-selections action

#27 gregcaporaso closed 4 years ago
1
add IDSelection.combine method

#26 gregcaporaso opened 4 years ago
0
NEW: summarize-selection

#25 ebolyen closed 4 years ago
3
add equality operator for IDSelection

#24 gregcaporaso opened 4 years ago
0
add smaller data set for testing

#23 gregcaporaso opened 4 years ago
0
factor number of degenerate characters into selection approach in sample-neighbors

#22 gregcaporaso opened 4 years ago
0
select sequences with fewest degenerate characters in sample-diversity

#21 gregcaporaso opened 4 years ago
0
updated readme

#20 gregcaporaso closed 4 years ago
0
CI: rename actions/jobs/etc

#19 thermokarst closed 3 years ago
0
snakemake workflow

#18 nbokulich closed 4 years ago
7
API: rename actions for simplicity

#17 gregcaporaso closed 4 years ago
2
add stand-alone locale sampler

#16 gregcaporaso opened 4 years ago
0
add sampling of near-neighbor context sequences

#15 gregcaporaso closed 4 years ago
2
DELETE ME

#14 thermokarst closed 4 years ago
0
CI: GitHub Actions lint, build, and test

#13 thermokarst closed 4 years ago
1
DOC: auto-build and deploy

#12 thermokarst closed 4 years ago
2
API: rename plugin and package

#11 gregcaporaso closed 4 years ago
0
Add MetadataColumn[Time] type to QIIME 2

#10 ebolyen opened 4 years ago
2
API: renamed parameter of filter-seqs

#9 gregcaporaso closed 4 years ago
0
have filter_seqs return a log

#8 gregcaporaso opened 4 years ago
0
reduce duplication of code in `GISAIDDNAFASTAFormat` validator

#7 gregcaporaso opened 4 years ago
0
Bootstrap jupyterbook builds

#6 thermokarst closed 4 years ago
0
Rename repo and plugin/package to `genome-sampler`

#5 thermokarst closed 4 years ago
1
adds GISAID format and transformer

#4 gregcaporaso closed 4 years ago
0
NEW: subsample-longitudinal

#3 ebolyen closed 4 years ago
0
Subsample random

#2 ebolyen closed 4 years ago
0
INIT: QIIME 2 plugin structure

#1 ebolyen closed 4 years ago
1

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