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openvax
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topiary
Predict mutated T-cell epitopes from sequencing data
Apache License 2.0
27
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9
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Handling StringTie .gtf files
#39
JPFinnigan
closed
8 years ago
3
Improve RNA loading
#38
iskandr
closed
8 years ago
2
Fix readthedocs build
#37
iskandr
opened
8 years ago
6
output Core from netmhciipan
#36
kippakers
opened
9 years ago
2
Integrating multiple predictions per peptide
#35
iskandr
opened
9 years ago
0
Add tests for fields of EpitopePrediction
#34
iskandr
opened
9 years ago
0
Added filtering by self ligandome, minor refactoring
#33
iskandr
closed
9 years ago
11
Add the topiary script to the user's path during topiary installation
#32
tavinathanson
opened
9 years ago
0
Add coveralls to Topiary
#31
tavinathanson
closed
9 years ago
1
Add Python 3.4 back, now that PyEnsembl works
#30
tavinathanson
closed
9 years ago
1
mhcIIpan only outputs 1 allele
#29
kippakers
closed
9 years ago
2
fix expected commandline arg type for reference-name
#28
iskandr
closed
9 years ago
2
Get Travis running on Python3
#27
tavinathanson
closed
8 years ago
2
Add NetMHCIIpan to topiary
#26
tavinathanson
closed
9 years ago
2
Get Topiary running on Travis
#25
tavinathanson
closed
9 years ago
2
mutant_epitope_predictor.epitopes_from_variants needs a test
#24
tavinathanson
opened
9 years ago
0
wrong version for mhctools in requirements.txt
#23
iskandr
closed
9 years ago
1
Simplify the topiary script by moving most arg-guided logic into the package
#22
iskandr
closed
9 years ago
5
Add unit tests for loading variant collections from JSON
#21
iskandr
closed
8 years ago
0
Added reference name argument, NetMHC predictor and loading Varcode JSON variant files
#20
iskandr
closed
9 years ago
1
Add --variant option to specify variants directly on the commandline
#19
timodonnell
closed
9 years ago
2
write proper HTML output
#18
timodonnell
opened
9 years ago
0
include commandline arguments used to invoke topiary in HTML output
#17
timodonnell
opened
9 years ago
0
consider exposing topiary as a web service
#16
timodonnell
opened
9 years ago
0
RNA filtering: check that the *variant transcript* is expressed
#15
timodonnell
opened
9 years ago
1
Add NetMHCIIpan as a predictor
#14
iskandr
closed
7 years ago
2
Get Topiary working with mice
#13
tavinathanson
closed
9 years ago
1
Topiary requires pandas >= 0.13.1, however it uses 0.15 functionality
#12
tavinathanson
closed
9 years ago
1
Is there a way to pass in the reference/release when it can't be infered
#11
tavinathanson
closed
8 years ago
2
--skip-variant-errors doesn't always work
#10
kippakers
opened
9 years ago
1
Update padding requirements to fix #8
#9
tavinathanson
closed
9 years ago
8
Padding around mutation doesn't always obey user's request
#8
tavinathanson
closed
9 years ago
0
Add tab completion for command-line arguments
#7
hammer
opened
9 years ago
0
Add LICENSE
#6
hammer
closed
9 years ago
1
'NetMHCpan' object has no attribute '_check_hla_alleles'
#5
tavinathanson
closed
9 years ago
4
moved logic from __init__.py to Predictor class
#4
iskandr
closed
9 years ago
2
High priority effects
#3
tavinathanson
closed
9 years ago
4
specify library dependency ranges
#2
iskandr
closed
9 years ago
1
Rename library to varmint, adopt adorable mascot
#1
iskandr
closed
9 years ago
1
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