multi_sample: Import enzyme substrate preference files and parse sample...

In edpratt1/KINATESTID: A Pipeline for Kinase-Specific Artificial Peptide Design

Description

Import enzyme substrate preference files and parse sample type

Usage

multi_sample(
  path,
  ptm_type = c("Oxidation (M)-M", "Carbamidomethylation-C", "Deamidation (NQ)-N",
    "Deamidation (NQ)-Q", "Phosphorylation (STY)-Y", "Phosphorylation (STY)-T",
    "Phosphorylation (STY)-S", "Acetylation (Protein N-term)-E",
    "Acetylation (Protein N-term)-D", "Acetylation (Protein N-term)-M",
    "Acetylation (Protein N-term)-S", "Acetylation (Protein N-term)-A",
    "Acetylation (Protein N-term)-T", "Acetylation (Protein N-term)-G",
    "Acetylation (Protein N-term)-C", "Acetylation (Protein N-term)-V",
    "Pyro-glu from Q-Q"),
  legacy = FALSE
)

Arguments

path	The directory containing the analyzed phosphoproteomics data
ptm_type	The post-translational modification to be analyzed and its targeted the amino acid. Currently, only one ptm type can be analyzed at a time. A list of ptm options can be accessed by typing 'ptm_key'
legacy	A logical parameter where TRUE is for files generated using the Galaxy-P KinaMine workflow. Is set to FALSE by default.

edpratt1/KINATESTID documentation built on Feb. 5, 2022, 1:21 p.m.