blachlylab swiftover issues

blachlylab / swiftover

Fast liftover

GNU General Public License v3.0

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issues

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Conda availability

#27 Kekananen opened 3 years ago
1
Consider run-time defined bespoke file formats

#26 jblachly opened 3 years ago
0
MAF: Reference for insertions should be `-`

#25 jblachly closed 3 years ago
1
MAF: check REF/tumor don't match also before liftover

#24 jblachly closed 3 years ago
1
MAF format

#23 jblachly opened 3 years ago
30
Would like contig name remapping

#22 jblachly opened 4 years ago
0
benchmark qcontigid branch

#21 jblachly closed 4 years ago
1
Fail a VCF mapping if multiple hits

#20 jblachly opened 5 years ago
0
IITree accept pointer

#19 jblachly closed 5 years ago
1
not specifying -t prints no message and exits

#18 jblachly closed 5 years ago
1
thickStart/thickEnd invalid and/or miscalculated

#17 jblachly closed 5 years ago
1
Extended BED fields

#16 kautto closed 5 years ago
2
Need merge contiguous intervals

#15 jblachly closed 3 years ago
1
GFF3 format

#14 jblachly opened 5 years ago
0
Must gracefully handle contig not in map

#13 jblachly opened 5 years ago
1
Multiple query (destination) mapping to same target (source) violates assumption

#12 jblachly opened 5 years ago
0
single-link chains not handled correctly

#11 jblachly closed 5 years ago
2
minus-strand target in chain violates assumptions/crashes

#10 jblachly closed 5 years ago
1
bgzf/gzip/network file support added

#9 charlesgregory opened 5 years ago
0
embeddable julia or lua script for tag processing

#8 jblachly opened 5 years ago
0
interval trees: use stdx.allocator / configurable memory alloc strategy

#7 jblachly opened 5 years ago
2
Merge confluent output regions

#5 jblachly opened 5 years ago
1
Eliminate ChainInterval query, encode only delta

#4 jblachly closed 5 years ago
3
Optimize if/else branch order

#3 jblachly closed 5 years ago
1
Show help text when no -h passed

#2 jblachly closed 3 years ago
1
Handling missing -u

#1 jblachly closed 5 years ago
1