Published July 25, 2020
| Version 1.7.1
Software
Open
Kinggerm/GetOrganelle: GetOrganelle v1.7.1
Authors/Creators
- 1. Kunming Institute of Botany, CAS
- 2. Xishuangbanna Tropical Botanical Garden, Chinese Academy of Sciences
Description
- Assembly.get_all_circular_paths(): optimized for plastome order - starting from the "single copy contigs at branching points" rather than the previous "largest single copy contig"; the whole potential lsc region are now taking into account for orfs counting for output orientation.
- get_organelle_from_reads.py: 1) --ignore-k work for small k disentanglement; 2) fix a bug when input reads are very few; 3) better log info
- get_organelle_from_assembly.py: 1) do not convert gfa to fastg during sub-steps; 2) better log info
- Assembly.reduce_to_subgraph: limit_offset_current_vertex -> bait_offsets, the former was a risky setting of slim_graph.py since 1.7.0 because of --max-slim-extending-len added, now issue solved.
- Utilities/slim_fastg.py: fix a bug with anonym mode
- README.md: updated
Files
Kinggerm/GetOrganelle-1.7.1.zip
Files
(207.6 kB)
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Additional details
Related works
- Is supplement to
- https://github.com/Kinggerm/GetOrganelle/tree/1.7.1 (URL)