search

compomics / DeepLC

DeepLC: Retention time prediction for (modified) peptides using Deep Learning.
https://iomics.ugent.be/deeplc
Apache License 2.0
56 stars 19 forks source link

Datasets #77

Open xiaosiruwei opened 4 months ago

xiaosiruwei commented 4 months ago

May I ask which file on the corresponding image of SWATH Library, HeLa HF, and DIA HF is used to evaluate the performance of unmodified peptides? Snipaste_2024-07-29_17-33-04

RobbinBouwmeester commented 4 months ago

Hi Xiaosiruwei,

All the translations are available in the figures.ipynb on the zenodo repository.

In this case it is:

rename_dict = { "mod_fixed_mods" : "HeLa DeepRT", "unmod_fixed_mods" : "Yeast DeepRT", "LUNA_HILIC_fixed_mods" : "LUNA HILIC", "LUNA_SILICA_fixed_mods" : "LUNA SILICA", "SCX_fixed_mods" : "SCX", "Xbridge_fixed_mods" : "Xbridge", "dia_fixed_mods" : "SWATH library", "PXD005573_mcp" : "DIA HF", "prosit_ptm_2020" : "ProteomeTools PTM", "ATLANTIS_SILICA_fixed_mods" : "ATLANTIS SILICA", "plasma_lumos_1h_psms_aligned" : "Plasma lumos 1h", "plasma_lumos_2h_psms_aligned" : "Plasma lumos 2h", "hela_lumos_1h_psms_aligned" : "HeLa Lumos 1h", "hela_lumos_2h_psms_aligned" : "HeLa Lumos 2h", "pancreas_psms_aligned" : "Pancreas", "arabidopsis_psms_aligned" : "Arabidopsis", "hela_hf_psms_aligned" : "HeLa HF", "yeast_60min_psms_aligned" : "Yeast 1h", "yeast_120min_psms_aligned" : "Yeast 2h", "proteometools_library" : "ProteomeTools", }

Hope that helps!

Kind regards,

Robbin