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Analyzed about 5 hours ago. based on code collected about 10 hours ago.

Commit Message	Contributor	Files Modified	Lines Added	Lines Removed	Code Location	Date
May 03, 2023 — May 03, 2024 Showing page 9 of 17 Search / Filter on:
Connect to correct registry DBs, and add function to get a species subtree. Used in 2xmammals slrsim.	Greg Jordan	More...				almost 14 years ago
Utility function to translate IDs in a SimpleAlign.	Greg Jordan	More...				almost 14 years ago
Add missing readme file to hive dir.	Greg Jordan	More...				almost 14 years ago
Bugfixes and API updates to my hacked-up Codeml & Baseml modules.	Greg Jordan	More...				almost 14 years ago
Updates to Gorilla modules.	Greg Jordan	More...				almost 14 years ago
Add some new R scripts to the repo.	Greg Jordan	More...				almost 14 years ago
Smart change to Stats collection utils. This will have to be updated for proper data_id databases, but working now for 2xmammals stuff.	Greg Jordan	More...				almost 14 years ago
Some extra functions for Processes	Greg Jordan	More...				almost 14 years ago
Some updates to EslrUtils.	Greg Jordan	More...				almost 14 years ago
Merge branch 'master' of [email protected]:gjuggler/greg-ensembl	Greg Jordan	More...				almost 14 years ago
Merge branch 'master' of [email protected]:gjuggler/greg-ensembl	Greg Jordan	More...				almost 14 years ago
Updates from Sanger.	Greg Jordan	More...				almost 14 years ago
Revert stupid typo.	Greg Jordan	More...				almost 14 years ago
Slrsim improvements, ran some 2xmammals FDR simulations on EBI cluster.	Greg Jordan	More...				almost 14 years ago
Add SLR tree length to default sitewise stats collected.	Greg Jordan	More...				almost 14 years ago
Merge branch 'master' of [email protected]:gjuggler/greg-ensembl	Greg Jordan	More...				almost 14 years ago
More updates, mostly to Primate_HIV-specific analyses.	Greg Jordan	More...				almost 14 years ago
Merge branch 'master' of [email protected]:gjuggler/greg-ensembl	Greg Jordan	More...				almost 14 years ago
Slrsim updates.	Greg Jordan	More...				almost 14 years ago
Update the primate notebook and pipeline creation script	Greg Jordan	More...				almost 14 years ago
Add data_id field to sitewise_omega table and add it to the unique index. All sitewise values should have a good data_id value.	Greg Jordan	More...				almost 14 years ago
Change the default collection of PSCs and NSCs to separately store each nested subset of positive and negative counts.	Greg Jordan	More...				almost 14 years ago
Add alignment slice start and end points to the stats_genes table for primate HIV analysis.	Greg Jordan	More...				almost 14 years ago
Fix some inconsistencies in sliding window splitter.	Greg Jordan	More...				almost 14 years ago
Settle down the system of referring to node_id, data_id, and aln_position. All aln_position values in the tables will refer to the original compara alignment positions. Node IDs will change only after the NodeSets runnable, but data_id can change at any splitting step. SitewiseMapper should only contain calculations that need to be run once per orthologous tree; anything more slice-specific should go into a separate runnable.	Greg Jordan	More...				almost 14 years ago
Further sequence quality work for chimps.	Greg Jordan	More...				almost 14 years ago
Stop an annoying BioPerl warning coming from the get_SimpleALign method.	Greg Jordan	More...				almost 14 years ago
Tune up the sequence quality loading to work with large Chimp chromosomes.	Greg Jordan	More...				almost 14 years ago
Add method to map column positions from one alignment to another based on shared sequence residues.	Greg Jordan	More...				almost 14 years ago
Manual merge	Greg Jordan	More...				almost 14 years ago

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