ucsd-ccbb VAPr issues - Githubissues

ucsd-ccbb / VAPr

VAPr: A Python package for NoSQL variant data storage, annotation and prioritization

MIT License

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issues

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update docs for ANNOVAR installation

#25 jiarui-hu opened 3 years ago
0
VAPr crashes when necessary db not installed in ANNOVAR

#24 dbrami opened 6 years ago
0
Parsing VCF ANN fields

#23 dbrami opened 6 years ago
0
Update documentation and post to Read The Docs

#22 carlomazzaferro closed 6 years ago
1
Augment _collect_annotations_and_store to take in additional attributes (extra_data) from design file

#21 AmandaBirmingham opened 6 years ago
0
Refactor list of desired myvariant.info fields into yaml file for easy modification

#20 AmandaBirmingham opened 6 years ago
0
Allow previously queried and stored variants to be shared across projects

#19 kmfisch closed 6 years ago
1
Some bug fixes, considerable renaming, lots of comments on potential …

#18 AmandaBirmingham closed 7 years ago
0
Add flag to query only fields of interest in myvariant.info

#17 kmfisch closed 6 years ago
1
Create command-line executable

#16 kmfisch opened 7 years ago
1
Optimize variant filtering/prioritization

#15 kmfisch closed 6 years ago
2
Create write csv function after myvariant.info annotation before loading into mongodb as intermediate output

#14 kmfisch closed 6 years ago
2
Add sample name to json for each document from filename, rather than embedded sample name in vcf

#13 kmfisch opened 7 years ago
2
Optimize performance -- query myvariant.info for union of all sample variants

#12 kmfisch closed 6 years ago
1
Add filter after annovar annotation to include those != synonymous

#11 kmfisch closed 6 years ago
1
Check data files used by tests into GitHub repository

#10 AmandaBirmingham closed 6 years ago
1
Fix CSV output format

#9 kmfisch closed 6 years ago
1
Make sure csv writer works in example notebook post-filtering

#8 kmfisch closed 7 years ago
1
Fancy documentation

#7 kmfisch closed 7 years ago
1
Fix de novo variant filter

#6 kmfisch closed 7 years ago
1
Add detailed docstrings for pre-built queries/filters

#5 kmfisch closed 7 years ago
1
Add Mutect Parser

#4 kmfisch opened 7 years ago
0
Handling of reading multiple VCF files

#3 kmfisch closed 7 years ago
1
Design File Configuration

#2 kmfisch closed 7 years ago
2
Expand VaprAnnotator interface to accept list of custom ANNOVAR dbs

#1 kmfisch opened 7 years ago
1