IMPACT_process: Process IMPACT files
In RajLabMSSM/echoannot: echoverse module: Annotate fine-mapping results

IMPACT_process

R Documentation

Process IMPACT files

Description

Process IMPACT files so that they're all tabix-indexed and prepare them for upload.

Usage

IMPACT_process(
  IMPACT_dir,
  sandbox = TRUE,
  title = "IMPACT",
  zipfile = file.path(tempdir(), "IMPACT707"),
  token = Sys.getenv("zenodo_token"),
  validate = TRUE,
  verbose = TRUE
)

Arguments

`IMPACT_dir`	Directory where IMPACT repo has been cloned to.
`sandbox`	Whether to use the Zenodo or Zenodo Sandbox API.
`token`	Zenodo Personal access token.
`verbose`	Print messages.

Source

#### Downloading annotations #### git clone IMPACT Mac: git lfs fetch --all git lfs pull Linux: sudo apt-get install git-lfs git-lfs fetch --all git-lfs pull

#### Installing zen4R #### ## has some system deps that have to be installed beforehand. sudo apt-get install raptor2-utils sudo apt-get install rasqal-utils sudo apt-get install librdf0-dev

RajLabMSSM/echoannot documentation built on Oct. 26, 2023, 2:41 p.m.