hammerlab/prohlatype issues and pull requests

#48 - Use a priority queue as opposed to min_elt from Map

Issue - State: closed - Opened by rleonid about 8 years ago - 2 comments
Labels: Performance

#47 - Cache the adjacency calculation.

Issue - State: closed - Opened by rleonid about 8 years ago - 1 comment
Labels: Performance

#47 - Cache the adjacency calculation.

Issue - State: closed - Opened by rleonid about 8 years ago - 1 comment
Labels: Performance

#46 - Merge the merge

Pull Request - State: closed - Opened by rleonid about 8 years ago - 1 comment

#45 - Track alignment version

Pull Request - State: closed - Opened by rleonid about 8 years ago - 1 comment

#45 - Track alignment version

Pull Request - State: closed - Opened by rleonid about 8 years ago - 1 comment

#44 - Add gap and fold tracking for alignments.

Issue - State: closed - Opened by rleonid about 8 years ago - 4 comments

#44 - Add gap and fold tracking for alignments.

Issue - State: closed - Opened by rleonid about 8 years ago - 4 comments

#43 - Add graph merging functionality

Issue - State: closed - Opened by rleonid about 8 years ago - 3 comments

#43 - Add graph merging functionality

Issue - State: closed - Opened by rleonid about 8 years ago - 3 comments

#42 - Latest imgt

Pull Request - State: closed - Opened by rleonid about 8 years ago

#42 - Latest imgt

Pull Request - State: closed - Opened by rleonid about 8 years ago

#41 - Expand our benchmark data

Issue - State: open - Opened by hammer about 8 years ago - 2 comments

#41 - Expand our benchmark data

Issue - State: open - Opened by hammer about 8 years ago - 2 comments

#40 - Parse the IMGT version

Issue - State: closed - Opened by rleonid about 8 years ago - 1 comment

#40 - Parse the IMGT version

Issue - State: closed - Opened by rleonid about 8 years ago - 1 comment

#39 - Read pairs

Pull Request - State: closed - Opened by rleonid about 8 years ago

#39 - Read pairs

Pull Request - State: closed - Opened by rleonid about 8 years ago

#38 - Update README.

Pull Request - State: closed - Opened by rleonid about 8 years ago

#38 - Update README.

Pull Request - State: closed - Opened by rleonid about 8 years ago

#37 - Add a snapshot of latest graph files

Pull Request - State: closed - Opened by rleonid about 8 years ago

#37 - Add a snapshot of latest graph files

Pull Request - State: closed - Opened by rleonid about 8 years ago

#36 - Improve allele selection in graph

Pull Request - State: closed - Opened by rleonid about 8 years ago

#36 - Improve allele selection in graph

Pull Request - State: closed - Opened by rleonid about 8 years ago

#35 - Ci tests

Pull Request - State: closed - Opened by rleonid about 8 years ago - 1 comment

#35 - Ci tests

Pull Request - State: closed - Opened by rleonid about 8 years ago - 1 comment

#34 - Phred likelihood

Pull Request - State: closed - Opened by rleonid about 8 years ago

#34 - Phred likelihood

Pull Request - State: closed - Opened by rleonid about 8 years ago

#33 - Filter short circuit

Pull Request - State: closed - Opened by rleonid about 8 years ago

#33 - Filter short circuit

Pull Request - State: closed - Opened by rleonid about 8 years ago

#32 - Error argument

Pull Request - State: closed - Opened by rleonid about 8 years ago

#32 - Error argument

Pull Request - State: closed - Opened by rleonid about 8 years ago

#31 - Some analysis scripts

Pull Request - State: closed - Opened by rleonid about 8 years ago

#31 - Some analysis scripts

Pull Request - State: closed - Opened by rleonid about 8 years ago

#30 - Add basic MHC nomenclature parsing

Pull Request - State: closed - Opened by rleonid about 8 years ago - 4 comments

#30 - Add basic MHC nomenclature parsing

Pull Request - State: closed - Opened by rleonid about 8 years ago - 4 comments

#29 - Convert explore into an app

Pull Request - State: closed - Opened by rleonid about 8 years ago

#28 - Parameterize alignment

Pull Request - State: closed - Opened by rleonid about 8 years ago - 1 comment

#28 - Parameterize alignment

Pull Request - State: closed - Opened by rleonid about 8 years ago - 1 comment

#27 - More accuracy

Pull Request - State: closed - Opened by rleonid over 8 years ago - 1 comment

#27 - More accuracy

Pull Request - State: closed - Opened by rleonid over 8 years ago - 1 comment

#26 - Typing check

Pull Request - State: closed - Opened by rleonid over 8 years ago

#26 - Typing check

Pull Request - State: closed - Opened by rleonid over 8 years ago

#25 - Multi branch

Pull Request - State: closed - Opened by rleonid over 8 years ago - 1 comment

#25 - Multi branch

Pull Request - State: closed - Opened by rleonid over 8 years ago - 1 comment

#24 - `make setup` fails

Issue - State: closed - Opened by smondet over 8 years ago - 3 comments

#24 - `make setup` fails

Issue - State: closed - Opened by smondet over 8 years ago - 3 comments

#23 - By position array

Pull Request - State: closed - Opened by rleonid over 8 years ago

#22 - Clean up same sequence normalization

Pull Request - State: closed - Opened by rleonid over 8 years ago

#22 - Clean up same sequence normalization

Pull Request - State: closed - Opened by rleonid over 8 years ago

#21 - Refine same sequence joining pass

Pull Request - State: closed - Opened by rleonid over 8 years ago

#21 - Refine same sequence joining pass

Pull Request - State: closed - Opened by rleonid over 8 years ago

#20 - Rename normalization

Pull Request - State: closed - Opened by rleonid over 8 years ago

#20 - Rename normalization

Pull Request - State: closed - Opened by rleonid over 8 years ago

#19 - Do not quote the string in Nodes.vertex_name only in the output logic.

Pull Request - State: closed - Opened by rleonid over 8 years ago

#19 - Do not quote the string in Nodes.vertex_name only in the output logic.

Pull Request - State: closed - Opened by rleonid over 8 years ago

#18 - Adjacents calculation

Pull Request - State: closed - Opened by rleonid over 8 years ago

#18 - Adjacents calculation

Pull Request - State: closed - Opened by rleonid over 8 years ago

#17 - Align the start boxes

Pull Request - State: closed - Opened by rleonid over 8 years ago - 2 comments

#17 - Align the start boxes

Pull Request - State: closed - Opened by rleonid over 8 years ago - 2 comments

#16 - Run encode the alleles

Pull Request - State: closed - Opened by rleonid over 8 years ago - 2 comments

#16 - Run encode the alleles

Pull Request - State: closed - Opened by rleonid over 8 years ago - 2 comments

#15 - Add manual graph construction API

Pull Request - State: closed - Opened by ihodes over 8 years ago - 1 comment

#15 - Add manual graph construction API

Pull Request - State: closed - Opened by ihodes over 8 years ago - 1 comment

#14 - Kmer indexed at end

Pull Request - State: closed - Opened by rleonid over 8 years ago - 2 comments

#14 - Kmer indexed at end

Pull Request - State: closed - Opened by rleonid over 8 years ago - 2 comments

#13 - Examine impact of capture kit on WES HLA typing

Issue - State: open - Opened by hammer over 8 years ago

#13 - Examine impact of capture kit on WES HLA typing

Issue - State: open - Opened by hammer over 8 years ago

#12 - Use Cmdliner for the type arguments

Pull Request - State: closed - Opened by rleonid over 8 years ago

#12 - Use Cmdliner for the type arguments

Pull Request - State: closed - Opened by rleonid over 8 years ago

#11 - Simple graph construction API

Issue - State: closed - Opened by ihodes over 8 years ago - 2 comments

#11 - Simple graph construction API

Issue - State: closed - Opened by ihodes over 8 years ago - 2 comments

#10 - Better way to encode allele names in edges

Issue - State: closed - Opened by ihodes over 8 years ago - 3 comments
Labels: visualization

#10 - Better way to encode allele names in edges

Issue - State: closed - Opened by ihodes over 8 years ago - 3 comments
Labels: visualization

#9 - Indexing

Pull Request - State: closed - Opened by rleonid over 8 years ago - 1 comment

#9 - Indexing

Pull Request - State: closed - Opened by rleonid over 8 years ago - 1 comment

#8 - Add the interface back to the parser.

Pull Request - State: closed - Opened by rleonid over 8 years ago

#8 - Add the interface back to the parser.

Pull Request - State: closed - Opened by rleonid over 8 years ago

#7 - Graph construction invariants

Issue - State: closed - Opened by rleonid over 8 years ago - 1 comment

#7 - Graph construction invariants

Issue - State: closed - Opened by rleonid over 8 years ago - 1 comment

#6 - A graph without the reference

Issue - State: closed - Opened by rleonid over 8 years ago

#5 - Regression tests

Issue - State: closed - Opened by rleonid over 8 years ago - 1 comment

#4 - Multiple sequence paths should consider other present paths when constructing graph

Issue - State: closed - Opened by rleonid over 8 years ago - 1 comment

#3 - Invariants to make the parsing robust

Issue - State: closed - Opened by rleonid over 8 years ago - 1 comment

#2 - Create the mhc2gpdf utility.

Pull Request - State: closed - Opened by rleonid over 8 years ago - 6 comments

#1 - Refine

Pull Request - State: closed - Opened by rleonid over 8 years ago

GitHub / hammerlab/prohlatype issues and pull requests