FragGeneScanRs
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unipept
Better and faster Rust implementation of the FragGeneScan gene prediction model for short and error-prone reads.
First, love this tool. Wondering if the error models for PacBio and Nanopore will be a including in a future release? Or how would you recommend to include it? Many...
The installation instructions in the readme should be a bit longer and also targeted towards non-computer scientists. The recommended way is probably using cargo. The instructions to compile it from...
> Can you also add a support for gzipped fasta file as input? Should be very easy to implement? Or is is already supported? Think about when we have huge...
The `meta/evaluation` directory contains a result quality benchmark on a complete genome. A benchmark on contigs should be added as well. First step would be to find a properly annotated...
FragGeneScanRs should be added to Bioconda to ease installation and use from Python. Integration in python could likely be similar to the existing FGS integration. Hurdle might be the rust...
Let the user choose a codon translation table instead of always using the 11th table. Would also require changing the start/stop-codon checks in the algorithm and possibly retraining the HMM...