Ecosyste.ms: Issues

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GitHub / andrewhill157/leiden issues and pull requests

#47 - Bump wheel from 0.23.0 to 0.38.1

Pull Request - State: open - Opened by dependabot[bot] almost 2 years ago
Labels: dependencies

#44 - _LOVD3Database doesn't acquire full list of genes

Issue - State: open - Opened by falquaddoomi almost 8 years ago

#43 - Update validation script command line interface

Issue - State: open - Opened by andrewhill157 over 10 years ago

#42 - Splice/Intron/UTR Variant Validation

Issue - State: open - Opened by andrewhill157 over 10 years ago

#41 - Look into changing to VEP Remapping

Issue - State: closed - Opened by andrewhill157 over 10 years ago - 2 comments

#40 - Loosen Broad Cluster Dependencies

Issue - State: closed - Opened by andrewhill157 over 10 years ago - 1 comment
Labels: enhancement

#39 - Loosen Broad Cluster Dependencies

Issue - State: closed - Opened by andrewhill157 over 10 years ago

#38 - Test Issue

Issue - State: closed - Opened by andrewhill157 over 10 years ago

#37 - Write code to generate pseudo-VCF output files

Issue - State: closed - Opened by andrewhill157 over 10 years ago

#36 - Look into REST API service for LOVD

Issue - State: closed - Opened by andrewhill157 over 10 years ago

#35 - Split remapped entries into CHROM #, COORDINATE, REF, ALT in output file

Issue - State: closed - Opened by andrewhill157 over 10 years ago - 1 comment

#34 - Some LOVD3 genes list multiple reference transcripts

Issue - State: closed - Opened by andrewhill157 over 10 years ago - 2 comments

#33 - Handle empty entries on database more gracefully

Issue - State: closed - Opened by andrewhill157 over 10 years ago - 2 comments

#32 - Integrate Mutalyzer WebServices to automate remapping

Issue - State: closed - Opened by andrewhill157 over 10 years ago - 10 comments

#31 - Ensure header label extraction is robust.

Issue - State: closed - Opened by andrewhill157 almost 11 years ago
Labels: enhancement

#30 - Ensure data sent to Monkol has consistent header ordering

Issue - State: closed - Opened by andrewhill157 almost 11 years ago - 2 comments

#29 - Add Full LOVD3 Support

Issue - State: closed - Opened by andrewhill157 almost 11 years ago - 2 comments

#28 - Introduce better error handling for link extraction

Issue - State: closed - Opened by andrewhill157 almost 11 years ago
Labels: enhancement

#27 - Fix bug: genes with over 1000 entries are cut off at 1000 with current script

Issue - State: closed - Opened by andrewhill157 almost 11 years ago - 2 comments
Labels: bug

#26 - Discuss DMD variants with monkol

Issue - State: closed - Opened by andrewhill157 almost 11 years ago
Labels: question

#25 - Clean up file delimiter and file naming inconsistencies.

Issue - State: closed - Opened by andrewhill157 almost 11 years ago
Labels: enhancement

#24 - Look into extracting data from entire Leiden Database

Issue - State: closed - Opened by andrewhill157 almost 11 years ago - 4 comments

#23 - Modify initial filetering of extracted Leiden Data

Issue - State: closed - Opened by andrewhill157 almost 11 years ago - 1 comment
Labels: enhancement

#22 - Discuss validation more closely with Monkol.

Issue - State: closed - Opened by andrewhill157 almost 11 years ago
Labels: question

#21 - Discuss Indels with Monkol

Issue - State: closed - Opened by andrewhill157 almost 11 years ago
Labels: question

#20 - Add unit tests

Issue - State: closed - Opened by andrewhill157 almost 11 years ago - 2 comments
Labels: enhancement

#19 - Start using pycharms IDE

Issue - State: closed - Opened by andrewhill157 almost 11 years ago

#18 - Migrate code to Python 3.3

Issue - State: closed - Opened by andrewhill157 almost 11 years ago

#17 - Update documentation

Issue - State: closed - Opened by andrewhill157 almost 11 years ago - 1 comment

#16 - Update all command line arguments to argsparse.

Issue - State: closed - Opened by andrewhill157 almost 11 years ago - 2 comments

#15 - Look into better command line interfaces

Issue - State: closed - Opened by andrewhill157 almost 11 years ago - 1 comment

#13 - Fix line break error in data extraction script

Issue - State: closed - Opened by andrewhill157 almost 11 years ago
Labels: bug

#12 - Make function that can automatically rename mutalyzer downloads

Issue - State: closed - Opened by andrewhill157 almost 11 years ago - 2 comments
Labels: enhancement

#8 - Process additional genes from Leiden and send to Monkol.

Issue - State: closed - Opened by andrewhill157 almost 11 years ago - 1 comment

#7 - Examine flags in processed annotation data to determine causes.

Issue - State: closed - Opened by andrewhill157 almost 11 years ago - 1 comment
Labels: todo

#6 - Add script to flag mutations in Monkol's annotation data.

Issue - State: closed - Opened by andrewhill157 almost 11 years ago - 1 comment

#5 - Fix body position when header changes for smaller screen sizes.

Issue - State: closed - Opened by andrewhill157 almost 11 years ago - 1 comment
Labels: bug

#4 - Need to validate mappings from mutalyzer output.

Issue - State: closed - Opened by andrewhill157 almost 11 years ago - 1 comment
Labels: question

#3 - Need to finish proper notation of non-SNP variants to a VCF like format.

Issue - State: closed - Opened by andrewhill157 almost 11 years ago - 1 comment
Labels: enhancement, question

#2 - Finalize which columns of data to include in open refine output and their format.

Issue - State: closed - Opened by andrewhill157 almost 11 years ago - 1 comment
Labels: question

#1 - Add refseq id automatic extraction.

Issue - State: closed - Opened by andrewhill157 almost 11 years ago
Labels: enhancement