data: Example mzIdenML File and MSnID Object

In MSnID: Utilities for Exploration and Assessment of Confidence of LC-MSn Proteomics Identifications

Description

MSnID object from c_elegans_A_3_1_21Apr10_Draco_10-03-04_msgfplus.mzid.gz dataset from PeptideAltas repository id PASS00308.

Usage

data(c_elegans)

Examples

data(c_elegans)
msnidObj


## Not run: 
## How to download the example mzID file from PeptideAltas:
try(setInternet2(FALSE),silent=TRUE)
ftp.loc <- "ftp://PASS00308:[e-mail]/MSGFPlus_Results/MZID_Files/c_elegans_A_3_1_21Apr10_Draco_10-03-04_msgfplus.mzid.gz"
download.file(ftp.loc, "c_elegans.mzid.gz")
## End(Not run)

## Not run: 
## Script for generation of the C. elegans example data:
msnidObj <- MSnID(".")
mzids <- system.file("extdata","c_elegans.mzid.gz",package="MSnID")
msnidObj <- read_mzIDs(msnidObj, mzids)
save(msnidObj, file='c_elegans.RData', compress='xz', compression_level=9)
# MD5 sum for the file is: a7c511a6502a6419127f1e46db48ed92
digest::digest(msnidObj)
# clean up the cache directory
unlink(".Rcache", recursive=TRUE)

## End(Not run)

MSnID documentation built on Nov. 8, 2020, 8:03 p.m.