Add Rob's reorganization #1

sdhutchins · 2017-05-03T18:25:19Z

grabear and others added 30 commits April 24, 2017 17:44

Cleaned; Added PAML organisms, taxon_ids.

9bd398f

README for lister.

afadd89

Added index directory for testing.

282a1d9

Needs a rework.

f329286

Cleaned; Added P

4c52aeb

Added post-blast analysis(duplication, missing); Added paml org, and …

f0964ec

…taxon id file parsing.

Test file - Missing and duplicated data.

201aebf

Test File - Template

9f54163

Added stuff from shaurita.

14f9f9d

Added MyGene data frame generator.

9f16ed3

Updated lister class.

2f7e5ba

Created a Lister subclass.

cda2f58

Created a BLASTn class.

2b8fe18

Added Shauritas logit class.

76794eb

Update.

d31ba4e

Finished BLASTn class; needs testing.

b421a0e

Deprecation.

3179924

Added post blast analysis to BLASTingTemplate class

1d56733

Added low level taxonomy function to Lister class.

db7dbd2

Added .gitignore file and PyCharm Plugin

5955281

Added post blast analysis logger.

3044c92

Added .gitignore file and PyCharm Plugin

e2b570c

Added .gitignore file and PyCharm Plugin

cc6105e

Removed .idea from VCS

c8687bd

MCSR blast testing script

fa13feb

MCSR blast testing script

d6f2219

MCSR blast testing script

07e33d3

MCSR blast testing script

97404c3

MCSR edit

ab2d64f

Merge branch 'master' of https://github.com/datasnakes/Datasnakes-Script

ba66e63

Commenting out mygene stuff.

grabear and others added 27 commits May 2, 2017 13:48

Fixed errors.

632d413

Fixing bugs.

93b77de

Merge branch 'master' of https://github.com/datasnakes/Datasnakes-Scr…

010e66e

…ipts

Update

6ba1b95

Fixed gi_list method.

44d0f1b

Fixed gi_list method.

677ce36

Fixed gi_list method.

7e6220d

Fixed gi_list method.

32d13a5

Fixed gi_list method.

997874f

Renamed from BLASTingTemplate.py to blast_analysis.py

95457c2

Renamed from lister.py to ortho_analysis.py

50254da

Add Shaurita's BLAST scripts.

e0ec7b9

Add Shaurita's BLAST scripts.

092b1ad

Reduced; Add SLACK stuff to logging class.

166126b

Update.

5d10927

Update.

5a9f998

Archived blast files.

8000

13b1cf0

Archived blastn files.

406fdae

Archived blast setup files.

9790ca5

Archived Entrez and MyGene files.

28ead59

Archived MyGene files.

4c4b50d

Archived Pandas files.

8df88ef

Added a centralized BLAST directory

d7237ad

Updated Packages.

7c51c4b

Created Orthologs module and moved files.

b3da1ea

Created Tools module and moved files.

cc0d1c0

Archived files.

b1f96b4

grabear merged commit ae31b0c into SDH-Review May 3, 2017

sdhutchins pushed a commit that referenced this pull request May 25, 2017

Attempt to get Tests working #1.

64244a2

sdhutchins added a commit that referenced this pull request Jan 9, 2018

Test docs build #1

528e3f9

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Add Rob's reorganization #1

Add Rob's reorganization #1

Add Rob's reorganization #1

Add Rob's reorganization #1

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