Quick Start

Input Files

crispr_screen is meant to be run from the command-line and expects at minimum three arguments:

1. an sgRNA-Gene count table (see formats for details)
2. the labels of the controls
3. the labels of the treatments

For additional options and descriptions see arguments.

Running [ crispr_screen ]

crispr_screen test \
  -i count_table.tsv \
  -c low_1 low_2 \
  -t high_1 high_2

Output Files

This will create three results files:

1. results.sgrna_results.tsv
2. results.gene_results.tsv
3. results.hits.tsv

With differential expression statistics for each respectively and a table for just the genes that are found to be significant (for descriptions of files see formats).