Redmar van den Berg
Redmar van den Berg
This allows fastp to match the behaviour of UMI-Tools, which uses (and requires) an underscore between the read name and the UMI. e.g. ```bash $ fastp -i R1.fq -o out.R1.fq...
This is a bugfix for https://github.com/ewels/MultiQC/issues/1624
HiFiasm is an assembler for long read HiFi data. This branch adds a module to parse the kmer plot that is generated from the input data, and is used by...
### Description of bug In recent versions of `picard CollectHsMetrics` (>2.23.8), PCT_TARGET_BASES is reported up to 100000x coverage, to support high depth amplicon sequencing (see https://github.com/broadinstitute/picard/pull/1542) However, this extends the...
I ran into the following problem when upgrading from cromwell 31.1 to 36. It looks like in cromwell 31.1, it is possible to pass a single File to a task...
**Snakemake version** ```bash snakemake --version 7.8.5 ``` **Describe the bug** When using [rule dependencies](https://snakemake.readthedocs.io/en/stable/snakefiles/rules.html#rule-dependencies) in a Snakefile that is used as a module, the rules are not updated when importing...
**Snakemake version** ```bash $ snakemake --version 7.8.5 ``` **Describe the bug** A Snakefile that uses rule inheritance cannot be imported as a module, snakemake gives an error. **Logs** ```python snakemake...
I'm working on a project that uses targetted HiFi sequencing of pharmacogenetic genes to deliver personalised advice regarding medicine dosage to patients. I am trying to use HiFiasm to do...
**Description of bug:** Switching from `log10` scale to `counts` in the HTML report reverts plot back to stacked bar graph. **MultiQC Error log:** There is no error log **File that...
It might be nice to add some examples to the documentation on how to use pytest-workflow to test different (workflow) languages, since there might be some specific steps users have...