Shaun Jackman

build(deps): Bump syn to 2 and darling to 0.20

1

- Bump `syn` from 1 to 2 - Bump `darling` from 0.14 to 0.20

Depend on `serde_with` version 2 or 3.

Enable [Dependabot](https://docs.github.com/en/code-security/dependabot) to open PRs to update dependencies.

Add `product_ok` and `sum_ok`

4

- `.try_product()` is a more convenient way of writing `.product::()` - `.try_sum()` is a more convenient way of writing `.sum::()` Modelled after [`.try_collect()`](https://docs.rs/itertools/latest/itertools/trait.Itertools.html#method.try_collect)

Depend on `indexmap` ≥ 1.

Depend on itertools >= 0.10

1

Depend on itertools >= 0.10

bedtools intersect fails when GFF file contains a ##FASTA section

12

``` ❯❯❯ bedtools intersect -v -a a.gff -b b.gff Error: line number 11752 of file a.gff has 1 fields, but 9 were expected. ``` ### a.gff ``` … 38 prokka...

Please tag a stable release

2

Thanks!

Filter by alignment score [feature request]

3

I'd like to filter out alignments with an alignment score (`AS:i`) less than some threshold.

pileup: Count reads supporting each base at each position

5

I have a feature request. I'd like to see a pileup command that reports the number of reads that support each base at each position. I'm not interested in indels....