Skip to content

make ASVs to close #18 #21

New issue

Have a question about this project? Sign up for a free GitHub account to open an issue and contact its maintainers and the community.

Sign up for GitHub

By clicking “Sign up for GitHub”, you agree to our terms of service and privacy statement. We’ll occasionally send you account related emails.

Already on GitHub? Sign in to your account

Open
wants to merge 22 commits into
base: master
Choose a base branch
from
Open

make ASVs to close #18 #21

Show file tree
Hide file tree
Changes from all commits
Commits
Show all changes
22 commits
Select commit Hold shift + click to select a range
1a4fa51
Add click option --pipeline
colinbrislawn Apr 27, 2019
4ba7af2
Add basic ASV pipeline
colinbrislawn Apr 27, 2019
35cd461
bump version
colinbrislawn Apr 27, 2019
f807168
bump minor version, not patch version
colinbrislawn Apr 27, 2019
3ea993c
Add pipline more places
colinbrislawn Apr 27, 2019
fabdd9a
Correct order of pipeline and add it more places
colinbrislawn Apr 27, 2019
93eb5ab
Bump vsearch version to support --unoise
colinbrislawn Apr 27, 2019
4db5129
Bump to more flexible version of vsearch and update Snakefile
colinbrislawn Apr 27, 2019
ac52599
Remove extra --strand argument
colinbrislawn Apr 28, 2019
0a81c9f
Use --relabel_md5 when building ASVs
colinbrislawn Apr 29, 2019
82ce59a
compile_counts using .99 instead of 1.0
colinbrislawn May 28, 2019
9af03f3
use ASV or OTU in full Snakefile'
colinbrislawn May 28, 2019
733d55d
duplicate report for ASVs
colinbrislawn May 28, 2019
895c307
update new report to discribe ASVs
colinbrislawn May 28, 2019
e00131a
switch report based on config.get("pipeline")
colinbrislawn May 28, 2019
0c717f5
strip size from ASV headers
colinbrislawn May 28, 2019
47423f5
bump vsearch to include gzip support
colinbrislawn May 28, 2019
5d6e212
troubleshoot results.zip and build_report
colinbrislawn May 28, 2019
f3506d3
update manifest to include reports
colinbrislawn May 29, 2019
6bae178
Merge branch 'master' into unoise
colinbrislawn Mar 18, 2024
08392b8
unpin bzip2 to updata vsearch
colinbrislawn Mar 18, 2024
3278382
Update zenodo.org download URL
colinbrislawn Mar 18, 2024
File filter

Filter by extension

Filter by extension
Conversations
Failed to load comments.
Loading
Jump to
Jump to file
Failed to load files.
Loading
Diff view
Diff view
3 changes: 2 additions & 1 deletion MANIFEST.in
View file
Open in desktop
Original file line number Diff line number Diff line change
@@ -1,3 +1,4 @@
include hundo/Snakefile
include hundo/environment.yml
include hundo/scripts/build_report.py
include hundo/scripts/build_report_OTU.py
include hundo/scripts/build_report_ASV.py
Loading