GitHub - Nesvilab/MSFragger-DIA-manuscript: Python and R scripts to generate the figures in the MSFragger-DIA paper

Python and R scripts to generate the figures in the paper:

Yu, F, Teo, G. C., Kong, A. T., Fröhlich, K., Li, G. X. , Demichev, V, Nesvizhskii, A..I. (2023). Analysis of DIA proteomics data using MSFragger-DIA and FragPipe computational platform, Nature Communications 14:4154.

Name		Name	Last commit message	Last commit date
Latest commit History 17 Commits
omicsev		omicsev
.gitignore		.gitignore
2018-HeLa.py		2018-HeLa.py
2020-Yeast.py		2020-Yeast.py
LICENSE		LICENSE
README.md		README.md
benchmark.R		benchmark.R
benchmark_cv.py		benchmark_cv.py
benchmark_get_human_ecoli_peptides.py		benchmark_get_human_ecoli_peptides.py
benchmark_lfqbench_2to1_precursor.R		benchmark_lfqbench_2to1_precursor.R
benchmark_lfqbench_2to1_protein.R		benchmark_lfqbench_2to1_protein.R
benchmark_lfqbench_4to1_precursor.R		benchmark_lfqbench_4to1_precursor.R
benchmark_lfqbench_4to1_protein.R		benchmark_lfqbench_4to1_protein.R
benchmark_upset.py		benchmark_upset.py
ccRCC.py		ccRCC.py
ccRCC_entrapment.py		ccRCC_entrapment.py
diann_maxlfq.R		diann_maxlfq.R
low-input-cell.py		low-input-cell.py
low-input-cell_S.py		low-input-cell_S.py
melanoma-phospho.py		melanoma-phospho.py
runtime.py		runtime.py
single-cell.py		single-cell.py
single-cell_S.py		single-cell_S.py
spectronaut_maxlfq.R		spectronaut_maxlfq.R
uniprot.tab		uniprot.tab

Provide feedback