apcamargo/genomad: geNomad v1.4.0

Added Mention Docker and the NMDC EDGE implementation in the README.md. Add the --min-plasmid-hallmarks-short-seqs and --min-virus-hallmarks-short-seqs parameters. These options allow filtering out short sequences (less than 2,500 bp) that don't encode a minimum number of hallmark genes. By default, short sequences need to encode at least one hallmark to be classified as a virus or a plasmid. Add the --conservative and --relaxed presets that control post-classification filters. The --conservative option makes those filters even more aggressive, resulting in more restricted sets of plasmid and virus, containing only sequences whose classification is strongly supported. The --relaxed preset disables all post-classification filters. Changed Windows with more than 4,000 Ns are ignored when encoding sequences for the neural network classification. The first window is always processed, regardless of the amount of Ns. Changed the default value of --min-score from 0.0 to 0.7. Changed the default search sensitivity from 4.0 to 4.2. Update README.md to version 1.4.0. This includes mentions to the --conservative and --relaxed flags and a warning about how changes in --splits can affect geNomad's output