Issues

Implement HMMER's handling of X's (for protein) and N's (for DNA)
evoldoers/machineboss#117 · opened on Jun 14, 2020
Implement intersection for I/O transducers
evoldoers/machineboss#106 · opened on Feb 20, 2019
Poly-A tail length caller
evoldoers/machineboss#105 · opened on Dec 6, 2018
Graph-grammar decoding
evoldoers/machineboss#104 · opened on Nov 20, 2018
1
Cancer signature models
evoldoers/machineboss#99 · opened on Nov 9, 2018
State & transition merging
evoldoers/machineboss#98 · opened on Nov 9, 2018
COSMIC gene fusion models
evoldoers/machineboss#89 · opened on Oct 15, 2018
Add test for --memoize, including idempotence
evoldoers/machineboss#68 · opened on Aug 13, 2018
Banded initializer for Envelope
evoldoers/machineboss#66 · opened on Aug 11, 2018
Rename presets consistently
evoldoers/machineboss#64 · opened on Aug 2, 2018
ham output
evoldoers/machineboss#63 · opened on Aug 2, 2018
HMMoC output
evoldoers/machineboss#62 · opened on Aug 2, 2018
StochHMM output
evoldoers/machineboss#61 · opened on Aug 2, 2018
BCR annotation from V(D)J-aware HMM
evoldoers/machineboss#60 · opened on Aug 2, 2018
Parse ham yaml files
evoldoers/machineboss#59 · opened on Aug 2, 2018
1
Add --data-stockholm option to specify training data as file of pairwise alignments
evoldoers/machineboss#58 · opened on Aug 2, 2018
1
Protein-to-basecalled-read with nanopore-trained error model
evoldoers/machineboss#57 · opened on Aug 2, 2018
Transmembrane protein prediction from DNA
evoldoers/machineboss#56 · opened on Aug 2, 2018
CUDA code generation
evoldoers/machineboss#53 · opened on Jul 25, 2018
Bitstutter indel test
evoldoers/machineboss#50 · opened on Jul 24, 2018
Protein to DNA test (compiled)
evoldoers/machineboss#44 · opened on Jul 21, 2018
Protein to DNA tests
evoldoers/machineboss#43 · opened on Jul 21, 2018
Simulator
evoldoers/machineboss#42 · opened on Jul 21, 2018
1
Protein HMM to DNA test (compiled)
evoldoers/machineboss#41 · opened on Jul 21, 2018
Protein HMM to RNN test
evoldoers/machineboss#33 · opened on Jul 10, 2018