A few typos

DESCRIPTION

@@ -1,10 +1,10 @@
 Package: scarHRD
 Type: Package
-Title: Estimatig Genomic scars signatures (LST, TAI,LOH)
+Title: Estimating Genomic Scars Signatures (LST, TAI, LOH)
 Version: 0.1.0
-Author: Zsofia Sztupinszki, Nicolaj Birkbak
+Author: Zsofia Sztupinszki, Nicolai Birkbak
 Maintainer: Zsofia Sztupinszki <zsosupi@bioinformatics.dtu.dk>
-Description: This package determines the level of homologous recombination deficiency based on WXS or WGS data. The imput files may be...
+Description: This package determines the level of homologous recombination deficiency based on WXS or WGS data. The input files may be...
 Depends: R (>= 3.4.2),sequenza,copynumber,data.table
 License: GPL-3
 Encoding: UTF-8

R/calc.ai_new.R

@@ -1,4 +1,4 @@
-#' Determnine Allelic imbalance
+#' Determine Allelic imbalance
 #'
 #' @param seg segmentation data
 #' @param chrominfo reference genome version

R/calc.hrd.R

@@ -1,4 +1,4 @@
-#' Determnine number of loss-off heterosigosity
+#' Determine number of loss of heterozygosity
 #'
 #' @param seg segmentation data
 #' @param nA column number of copy number of A allele

R/calc.lst.R

@@ -1,4 +1,4 @@
-#' Determnine large-scale transitions
+#' Determine large-scale transitions
 #'
 #' @param seg segmentation data
 #' @param chrominfo reference genome version

R/scar_score.R

@@ -1,6 +1,6 @@
 #' Scar score
 #'
-#' Determining genomic scar score (telomeric allelic imbalance, loss-off heterozigosity, large-scle transitions), signs of homologous recombination deficiency
+#' Determining genomic scar score (telomeric allelic imbalance, loss of heterozygosity, large-scale transitions), signs of homologous recombination deficiency
 #' @param seg Imput file: either a binned sequenza out file (or any other segmentation file with the following columns: chromosome, position, base.ref, depth.normal, depth.tumor, depth.ratio, Af, Bf, zygosity.normal, GC.percent, good.reads, AB.normal, AB.tumor, tumor.strand) or an allele-specific segmentation file with the following columns: 1st column: sample name, 2nd column: chromosome, 3rd column: segmentation start, 4th column: segmentation end, 5th column: total copynumber, 6th column: copy number of A allele, 7th column: copy number of B allele
 #' @param reference: reference genome: either grch38 or grch37. Default is grch38.
 #' @param seqz Optional parameter, set to TRUE, if input file is a binned sequenza file.

README.md

@@ -1,6 +1,6 @@
 # scarHRD
 
-scarHRD is an R package which determines the levels of homologous recombination deficiency (telomeric allelic imbalance, loss-off heterozigosity, number of large-scale transitions) based on NGS (WES, WGS) data.
+scarHRD is an R package which determines the levels of homologous recombination deficiency (telomeric allelic imbalance, loss of heterozygosity, number of large-scale transitions) based on NGS (WES, WGS) data.
 
 ## Citation