Merge requests · Zeller Group / GECCO · GitLab

Rewrite CLI to be more user friendly using `rich`

!19 · created Feb 28, 2021 by Martin Larralde code-quality enhancement short-term
- MERGED
- 0
updated Feb 28, 2021
Rewrite distribution files and update documentation and README

!18 · created Jan 13, 2021 by Martin Larralde
- MERGED
- 0
updated Jan 13, 2021
Replace HMMER3 with PyHMMER for domain annotation.

!17 · created Jan 11, 2021 by Martin Larralde v0.5.0 enhancement
- MERGED
- Approved
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updated Jan 11, 2021
Stop using `pandas` as the internal data layer

!16 · created Aug 06, 2020 by Martin Larralde v0.4.0 code-quality enhancement
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updated Aug 06, 2020
Replace Nearest-Neighbour classifier with Random Forest for BGC type prediction

!15 · created Aug 03, 2020 by Martin Larralde v0.3.0 enhancement short-term
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updated Aug 03, 2020
Change internal data layer and output clusters as GenBank files

!14 · created Jul 16, 2020 by Martin Larralde
- MERGED
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updated Jul 17, 2020
Setup project to download assets from GitHub releases when building wheel

!13 · created Jul 13, 2020 by Martin Larralde
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updated Jul 13, 2020
Fix FET feature selection causing some data to be erased from marginals prediction

!12 · created May 14, 2020 by Martin Larralde bug fixed short-term
- MERGED
- 0
updated May 14, 2020
Add feature selection using Fisher Exact Test

!11 · created May 04, 2020 by Martin Larralde enhancement
- MERGED
- 0
updated May 04, 2020
CRF / Refiner refactor

!10 · created Apr 29, 2020 by Martin Larralde bug code-quality
- MERGED
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updated Apr 29, 2020
Refactor CRF code and cross-validation interface

!9 · created Apr 20, 2020 by Martin Larralde bug code-quality enhancement performance
- MERGED
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updated Apr 20, 2020
Refactor

!8 · created Mar 30, 2020 by Martin Larralde code-quality enhancement short-term
- MERGED
- 0
updated Apr 08, 2020
Refactor HMM handling

!7 · created Mar 25, 2020 by Martin Larralde code-quality enhancement implemented
- MERGED
- 0
updated Mar 30, 2020
FIx issue with generated cluster prediction table

!6 · created Mar 10, 2020 by Martin Larralde bug fixed
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updated Mar 10, 2020
Add code support for multiple HMMs and fix issue with `gecco train`

!5 · created Mar 05, 2020 by Martin Larralde bug enhancement fixed implemented
- MERGED
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updated Mar 30, 2020
Fix extraction of sequence IDs and add columns to cluster table

!4 · created Mar 05, 2020 by Martin Larralde bug fixed
- MERGED
- 0
updated Mar 30, 2020
Fix coordinate extraction in `HMMER`

!3 · created Feb 28, 2020 by Martin Larralde bug fixed
- MERGED
- 0
updated Mar 30, 2020
Code refactor and new CLI for training GECCO

!2 · created Feb 24, 2020 by Martin Larralde code-quality enhancement implemented
- MERGED
- 0
updated Mar 30, 2020
Code refactor and improvements of the distribution system

!1 · created Jan 23, 2020 by Martin Larralde code-quality enhancement implemented
- MERGED
- 0
updated Mar 30, 2020