inst/doc/cb2-input-handling.R

In CB2: CRISPR Pooled Screen Analysis using Beta-Binomial Test

## ----setup, include=FALSE-----------------------------------------------------
knitr::opts_chunk$set(echo = TRUE)

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library(CB2)
library(dplyr)
library(readr)

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data("Evers_CRISPRn_RT112")
head(Evers_CRISPRn_RT112$count)

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Evers_CRISPRn_RT112$design

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sgrna_stats <- measure_sgrna_stats(Evers_CRISPRn_RT112$count, Evers_CRISPRn_RT112$design, "before", "after")
gene_stats <- measure_gene_stats(sgrna_stats)
head(gene_stats)

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df <- read_csv("https://raw.githubusercontent.com/hyunhwaj/CB2-Experiments/master/01_gene-level-analysis/data/Evers/CRISPRn-RT112.csv")
df

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head(measure_sgrna_stats(df, Evers_CRISPRn_RT112$design, "before", "after", ge_id = 'gene', sg_id = 'sgRNA'))