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Add easypqp convert pickles for easypqp/library module test #2259

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Add easypqp convert pickles for easypqp/library module test #2259

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addadac
Add easypqp convert output HepG2_rep1_small.psmpkl
jonasscheid Sep 4, 2026
2eb07fb
Add easypqp convert output HepG2_rep1_small.peakpkl
jonasscheid Sep 4, 2026
be7bc9e
Document easypqp pickles
jonasscheid Sep 4, 2026
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5 changes: 5 additions & 0 deletions data/proteomics/README.md
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Expand Up @@ -6,6 +6,7 @@
- [cif](#cif)
- [database](#database)
- [diann](#diann)
- [easypqp](#easypqp)
- [hhsuite](#hhsuite)
- [interproscan](#interproscan)
- [maxquant](#maxquant)
Expand Down Expand Up @@ -43,6 +44,10 @@ mmCIF files typically contain atomic coordinates, chain and residue information,

'diann_config.cfg' is a minimal DIA-NN configuration file containing basic parameters for in silico spectral library generation, including trypsin cleavage rules, peptide length constraints, and mass range settings.

## easypqp

- 'HepG2_rep1_small.psmpkl' and 'HepG2_rep1_small.peakpkl' are the outputs of `easypqp convert` (v0.1.59) run on `openms/HepG2_rep1_small.idXML` and `msspectra/HepG2_rep1_small.mzML`. They serve as input for `easypqp library`.

## hhsuite

The [HH-suite](https://github.com/soedinglab/hh-suite) is an open-source software package for sensitive protein sequence searching based on the pairwise alignment of hidden Markov models (HMMs).
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