RNA2DNAlign Input Files
SNVs
Single-nucleotide-variants (SNVs) in tabular or VCF format. Tabular
formats and their required extensions include whitespace separated
text files (.txt), tab-separated values files
(.tsv), comma-separated values files (.csv), Excel (.xlsx),
and Excel 2003 (.xls).
Text files must have four white-space separated columns representing the chromosome (CHROM), locus (POS), wild-type allele nucleotide (REF), and SNV nucleotide (ALT). Other tabular formats must provide CHROM, POS, REF, ALT headings.
All SNV loci, read alignments, and annotation files must indicate genomic position with respect to the same specific release of a common reference genome.
Read Alignment Files
Read alignment files in indexed BAM format. Filename extension .bam
expected with .bam.bai index files in the same folder. RNA2DNAlign will
execute fastest if all BAM files are sorted and indexed in a
consistent manner.
All read alignemnts, SNV loci, and annotation files must indicate genomic position with respect to the same specific release of a common reference genome.
See Also
RNA2DNAlign Home, Usage, Output Files, Annotation Files, Examples