This is a collection of useful scripts to analyse and format popular bioinformatic files, mainly dealing with NGS.
- get_pairs: separates paired reads and singletons from two paired fastq files (left and right)
- generSampleFastx: 2 scripts to generate sample files from fasta or fastq input files
- fastaNameFilter: filter the sequences in a fasta file given a string to find in the headers, or a file with all the ids
- fastqNameFilter: filter the reads in a fastq file given a string to find in the headers
- atomicblastplus: submit a massively parallel Blast+ job-array to a computer cluster running on Oracle Grid Engine (previously Sun Grid Engine)