A collection of tools for analysis of RNA-seq and transcriptomic data used by the Hibberd Lab.
Batch read processing scripts
- trim-batch - run trimmomatic on a series of FASTQ read files, optionally trimming paired and single reads in the same run. After quality analysis, this is the first step in an RNASeq pipeline.
- khmer-batch - run digital normalisation on a series of FASTQ read files, preserving the kmer counting hash between runs, to create a single normalised read dataset. Useful for incorporating a new read dataset with old data to generate an improved de-novo assembly.
All files released under the permissive MIT 'Expat' license unless otherwise specified.