broadinstitute poasta issues

broadinstitute / poasta

Fast and exact gap-affine partial order alignment

BSD 3-Clause "New" or "Revised" License

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issues

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unknown feature `stdsimd`

#22 grenaud closed 3 months ago
2
feat: move serde serialization behind the `serialize` feature flag

#21 lavafroth opened 3 months ago
0
Fix computing too much states than necessary and current quadratic (or even exponential) behaviour with increasing alignment score

#20 lrvdijk closed 9 months ago
1
Make serde serialization support optional and behind a cargo feature flag

#19 lrvdijk opened 1 year ago
0
Support reading FASTQ and use base quality weights in the alignment

#18 lrvdijk opened 1 year ago
0
Create better graphviz/dot visualizations

#17 lrvdijk closed 3 months ago
1
Create a `view` CLI subcommand that allows for conversion of different file formats

#16 lrvdijk closed 6 months ago
0
Output consensus sequence for a POA graph

#15 lrvdijk opened 1 year ago
2
Output a row-column MSA as FASTA from our POA graph

#14 lrvdijk closed 6 months ago
1
Serialize graph to disk with Serde

#13 lrvdijk closed 1 year ago
0
Implement WF-Adapt heuristic to prune wavefronts

#11 lrvdijk closed 3 months ago
0
Implement other alignment modes (e.g., glocal, ends-free, etc.)

#10 lrvdijk opened 1 year ago
0
Better optional support for tracking the aligner state, saving data that could be used for plotting and debugging

#9 lrvdijk closed 1 year ago
0
Option to write alignments to Graph Alignment Format (GAF)

#8 lrvdijk opened 1 year ago
0
Write graph to GFA

#7 lrvdijk closed 6 months ago
0
Organize code in a separate CLI and library crate

#6 lrvdijk closed 1 year ago
0
Add ability to read an existing MSA in tabular FASTA format

#5 lrvdijk closed 1 year ago
0
Create unit tests for the alignment algorithm

#4 lrvdijk opened 1 year ago
0
Create unit tests for adding sequences/alignments to a graph

#3 lrvdijk opened 1 year ago
0
Create test data sets

#2 lrvdijk closed 1 year ago
0
Create CLI to align sequences in a FASTA file

#1 lrvdijk closed 3 months ago
1