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Commits : Listings

Analyzed about 24 hours ago. based on code collected 1 day ago.
May 01, 2023 — May 01, 2024
Commit Message Contributor Files Modified Lines Added Lines Removed Code Location Date
Modified most wanted script to use qiime workflow framework, fixed piechart image paths, cleaned up code a bit, and fixed piechart plotting code. Added a few new blast parameters to script, mainly needed for testing. Their default values should be good when run on real data.
Jai Ram Rideout
More... over 11 years ago
added some of the files that live in the Dropbox directory that is shared between data analysts but which can't be in the public repo (related to non-EMP-funded studies)
Greg Caporaso
More... over 11 years ago
manually modified bad sample id
Greg Caporaso
More... over 11 years ago
Merge branch 'master' of github.com:EarthMicrobiomeProject/isme14
Greg Caporaso
More... over 11 years ago
removed study 1288: samples are incorrect and need to be re-run
Greg Caporaso
More... over 11 years ago
Added missing import statements to most wanted.
Jai Ram Rideout
More... over 11 years ago
Fixed bug in most wanted otus with reading blast results.
Jai Ram Rideout
More... over 11 years ago
Removed legacy code and fixed a few path-related bugs.
Jai Ram Rideout
More... over 11 years ago
Changed option type for most wanted script since a preformatted blast db filepath technically does not exist...
Jai Ram Rideout
More... over 11 years ago
Added first cut at most wanted otus script. TESTS will fail right now and still need to be updated.
Jai Ram Rideout
More... over 11 years ago
Added script and tests to create plot of advi by sample type.
Jai Ram Rideout
More... over 11 years ago
added non-emp-funded study
Greg Caporaso
More... over 11 years ago
updated list of studies that are not emp-funded to ensure that these don't get pushed to the repo
Greg Caporaso
More... over 11 years ago
Merge branch 'master' of github.com:EarthMicrobiomeProject/isme14
Greg Caporaso
More... over 11 years ago
added non-EMP funded OTU tables to gitignore
Greg Caporaso
More... over 11 years ago
Merge branch 'master' of github.com:EarthMicrobiomeProject/isme14
Greg Caporaso
More... over 11 years ago
updated merge command
Greg Caporaso
More... over 11 years ago
updated merge command
Greg Caporaso
More... over 11 years ago
modified to submit jobs to the queue rather than run locally
Greg Caporaso
More... over 11 years ago
modified to submit jobs to the queue rather than run locally
Greg Caporaso
More... over 11 years ago
updated otu picking and merge commands
Greg Caporaso
More... over 11 years ago
updated otu picking and merge commands
Greg Caporaso
More... over 11 years ago
removed study which should not have been included - not funded under EMP
Greg Caporaso
More... over 11 years ago
adding list of commands used for processing
Greg Caporaso
More... over 11 years ago
adding list of commands used for processing
Greg Caporaso
More... over 11 years ago
updated header information in code
Greg Caporaso
More... over 11 years ago
updated header information in code
Greg Caporaso
More... over 11 years ago
added script for parallel merging of OTU tables. this was initially developed by Daniel McDonald, and should be merged into QIIME. test code and data also included
Greg Caporaso
More... over 11 years ago
added script for parallel merging of OTU tables. this was initially developed by Daniel McDonald, and should be merged into QIIME. test code and data also included
Greg Caporaso
More... over 11 years ago
adding mapping file generated by Jesse Stombaugh on 7 Aug 2012. original mapping file name: EMP_studies_processed_8_7_12_mapping_file.txt.gz. Some extraneous data was removed from that file, and several samples which we plan to include are not currently not represented. these are 1235, 850 (no otu table yet), 550, and 722.
Greg Caporaso
More... over 11 years ago