| Age | Commit message (Collapse) | Author | |
|---|---|---|---|
| 2021-05-05 | base: chromosomes: Fetch the chromosomes lazily | BonfaceKilz | |
| 2021-05-05 | base: species: Rewrite Chromosomes using a dataclass | BonfaceKilz | |
| 2021-05-05 | base: species: Rewrite IndChromosome using a dataclass | BonfaceKilz | |
| 2021-05-05 | base: trait: Remove logging information | BonfaceKilz | |
| The log adds unnecessary noise in addition to creating unwanted side-effects. | |||
| 2021-05-05 | base: species: Rewrite TheSpecies class using a dataclass | BonfaceKilz | |
| 2021-05-05 | base: species: Remove unused import | BonfaceKilz | |
| 2021-05-05 | base: species: Format SQL queries | BonfaceKilz | |
| 2021-04-30 | autopep8: Fix E501 | BonfaceKilz | |
| 2021-04-30 | autopep8: Fix E301,E302,E303,E304,E305,E306 | BonfaceKilz | |
| 2021-04-30 | autopep8: Fix E20-E27 | BonfaceKilz | |
| Run: python -m autopep8 --in-place --recrusive ./ --select\ E20,E211,E22,E224,E224,E225,E226,E227,E228,E231,E241,\ E242,E251,E252,E26,E265,E266,E27 -p 3 | |||
| 2021-04-29 | Run `sed -i 's/(object)//g'` | BonfaceKilz | |
| See: https://is.gd/pL7IJF Ran: find . \( -type d -name .git -prune \) -o -type f -print0 | xargs -0 sed -i 's/(object)//g' | |||
| 2020-08-27 | Remove unused imports | BonfaceKilz | |
| 2020-08-26 | Remove "from __future__ import new_feature" statements | BonfaceKilz | |
| See: <https://docs.python.org/2/library/2to3.html#2to3fixer-future> | |||
| 2018-10-11 | - Added fix for GEMMA LOCO | zsloan | |
| - Added all current SNP browser code (not complete yet) - Added change to convert_geno_to_bimbam that makes it ignore .geno files marked as "filler" (so ones where the .geno file is fake and we sometimes directly receive the genotypes as BIMBAM) - Changes TheSpecies object in species.py to accept species name as well as dataset name | |||
| 2018-04-06 | Mapping figure output now gives more accurate information | zsloan | |
| Committing partway through removing a bunch of unused code/files just in case something necessary gets removed | |||
| 2016-06-23 | Logger: SQL | Pjotr Prins | |
| 2016-06-18 | Changed file permssions to non-executable | Pjotr Prins | |
| 2016-06-17 | Removed trailing spaces in .py and .js files | Pjotr Prins | |
| 2014-06-25 | Added Karl's correlation matrix code | Zachary Sloan | |
| Improved the "scatterplot matrix" feature on the trait page so that it matches the chosen trait against every selected trait | |||
| 2014-05-05 | Committing a bunch of changes related to integrating GEMMA and | Zachary Sloan | |
| adding the correlation matrix page | |||
| 2013-06-26 | Got code that creates DataSets object running | Zachary Sloan | |
| Fixed one genofile that had extra quotation marks in the comments that caused an error Defaults mb_graph_interval to 1 for species without chromosome lengths in megabases | |||
| 2013-04-09 | Nick's code works fine with human data | Zachary Sloan | |
| Added option to limit results based on lod score (which also changes the y-axis of the plot) | |||
| 2013-03-12 | Got cashing working with pickle | Zachary Sloan | |
| 2013-01-08 | Created IndChromosome class in species.py and wrote functions for | Zachary Sloan | |
| chromosome-related attributes Began to try and pass qtlreaper results as js_data to use when drawing graphs | |||
| 2013-01-08 | Deleted some unnecessary code in marker_regression.py and fixed some bugs | Zachary Sloan | |
| Added a couple utility functions to the Chromosomes class in species.py | |||
| 2013-01-03 | Began working on marker_regression.py and created Chromosomes class | Zachary Sloan | |
| in species.py | |||
| 2012-12-18 | Created new file species.py and species class object TheSpecies | Zachary Sloan | |
| Converted html for the mapping tabs to bootstrap and redid html inside of the Interval Mapping tab Added text input for # of permutation tests and bootstrap tests | |||
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index : genenetwork2 | |
| GeneNetwork (2nd generation) |
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