Contains miscellaneous scripts for genomics
-
FASTQtoFASTA.pl - Converts FASTQ files to FASTA/QUAL files. Autodetects Sanger/illumina encoding
-
get_SRA.pl - Downloads SRA files from the NCBI FTP site
-
orientRNAs - Reorient RNAs in a multifasta file according to their top blast hits
-
removeTP.pl - Removes NexteraXT transposon sequences from FASTQ files
-
SeqIO.pl - Interconverts common formats. Based on BioPerl's SeqIO module. Requires local installation of BioPerl
-
splitMultifasta - Splits a multifasta file into separate fasta (*.fsa) files
-
sort_by_coverage.pl - Filters the Contigs.tsv file generated by Ray according to the desired coverage range and minimum length