Shaun Jackman

1. Bump `revision` if present or otherwise add `revision 1` 2. Change `depends_on "[email protected]"` to `depends_on "[email protected]"`. - [ ] cutadapt - [ ] flowcraft - [ ] flye -...

quantile_mut: fatal runtime error: stack overflow

5

**Description** `quantile_mut` can fail with the error message: ``` thread 'main' has overflowed its stack fatal runtime error: stack overflow ``` **Version Information** - `ndarray`: 0.15.4 - `ndarray-stats`: 0.5.0 -...

Center the viewport on a vertex of interest

3

I'm looking at a graph with 642 vertices. ⌘F highlights a vertex by name. Could it also center the viewport on that vertex? See for example http://graphviz.it/#/dcunTyOQ/2 and find vertex...

Add read count (RC) attribute to GFA [feature request]

2

[Bandage](https://rrwick.github.io/Bandage/) will draw the thickness of the unitig segments according to their depth when the segments include the read count (`RC:i`) attribute. See https://github.com/GFA-spec/GFA-spec/blob/master/GFA1.md#optional-fields-2

I had the idea of polishing the unitigs using Racon, then reassembling these polished unitigs with the original raw reads to possibly hopefully reads that might join some of the...

unicycler: Add parameter --long_reads

2

# Porechop Add a porechop component. It accepts long reads from either a `--long_reads` parameter or from a `raw_long_reads` secondary channel. It produces long to the `long_reads` secondary channel. It...

Secondary channel for long reads

11

I'd like to add a parameter `--long-fastq` for use by `porechop` and `unicycler`. When `porechop` is used, it consumes the raw long reads, and its outputs is the input to...

Interleaved paired-end FASTQ file [feature request]

9

I prefer using interleaved paired-end FASTQ, for example as output by `seqtk mergepe`. Does or could Flowcraft support this format?

ERROR ~ No fastq files provided with pattern: 'pe_*.fastq.gz'

6

The command ```sh nextflow run spades.nf --fastq 'pe_*.fastq.gz' ``` produces the error ``` ERROR ~ No fastq files provided with pattern:'pe_*.fastq.gz' ``` This command ```sh nextflow run spades.nf --fastq "pe_{1,2}.fastq.gz"...

Add --milestone option to open_issue

1

I'd like to be able to set the milestone with the open_issue command. Thanks!