getRawCounts: Get combined raw counts

In cmatKhan/brentlabRnaSeqTools: A Collection of Functions to Interact with the Brentlab RNASeq Database

Description

Get combined raw counts

Usage

getRawCounts(database_host, database_name, database_user, database_password)

Arguments

database_host	if connecting to a database hosted on AWS, it might be something like ec2-54-83-201-96.compute-1.amazonaws.com
database_name	name of the database, eg for cryptococcus kn99, the database might be named kn99_database. Check with the documentation, whoever set up the database, or get into the server and check directly
database_user	a user of the actual database, with some level of permissions. You'll need to check with the database maintainer for this. It is suggested that you use a .Renviron file in your local project (make sure it is completely ignored by git, R, etc) to store this info
database_password	password to the database user. You'll need to check with the database maintainer for this. It is suggested that you use a .Renviron file in your local project (make sure it is completely ignored by git, R, etc) to store this info

Value

a gene by samples dataframe of all counts

cmatKhan/brentlabRnaSeqTools documentation built on Nov. 17, 2021, 5:47 a.m.