search

glormph / kantele

Lab proteomics raw and search data management
2 stars 1 forks source link

unify dda and pgt mzML def format, use pgt one, share the module in pipeline and rewrite DDA to use DSL2 #40

Closed glormph closed 1 year ago

glormph commented 1 year ago

We have an mzmldef param that takes a file with implicit fields (they have to be in right order). It is maybe nicer to use an explicit header, like the husensofteng/pgt pipeline does. Then we can share the code for parsing also between the pipelines.

This pipeline could also be rewritten to DSL2 for future-proofing and more sharing/importing of modules, at least within the lab.

glormph commented 1 year ago

The analysis front/back needs some redoing to also support pgt, now it is very centered around the dda pipeline. Look at #28 before redoing since otherwise you'll spend time looking at it later.

glormph commented 1 year ago

This issue is in the wrong repo.