Yuk Kei Wan

There is this revised compareTranscript() function current on a [pull request](https://github.com/GoekeLab/bambu/pull/177) to the [bambu-dev-bioc branch](https://github.com/GoekeLab/bambu/tree/bambu-dev-bioc). It will be great if the usage of this function within the bambu workflow can...

Can you make pepper available on conda, please?

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Hi @kishwarshafin, I am trying to incorporate `pepper` into `nf-core/modules`. Do you mind making `pepper` available on `conda`, please? Thanks! Best wishes, Yuk Kei

## Summary xPore v2.1 has some minor changes from the previous version, which include the following. - Fixed a bug in `dataprep`, which can now handle transcriptome fasta files without...

add dorado

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Currently, `dorado v0.3.2` is incorporated into through its docker container. It works without demultiplexing, but doesn't work with demultiplexing with `qcat` downstream I raised an issue on `dorado`'s github repo...

Hi @cying111, @andredsim, @lingminhao, @jonathangoeke, As we have discussed, it will be awesome that bambu can be run on command lines without requiring users to run it on RStudio nanoseq...

add pepper_margin_deepvariant

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THIS TOOL IS NOT ON CONDA YET ## PR checklist Closes #XXX - [x] This comment contains a description of changes (with reason). - [x] If you've fixed a bug...