ebobrow / fastx

Parser for FASTA/Q files

FASTX

Does stuff with FASTA/Q files

TODO (copying fastx_toolkit)

• FASTQ-to-FASTA converter--Convert FASTQ files to FASTA files.
• FASTQ Information--Chart Quality Statistics and Nucleotide Distribution
• FASTQ/A Collapser--Collapsing identical sequences in a FASTQ/A file into a single sequence (while maintaining reads counts)
• FASTQ/A Trimmer--Shortening reads in a FASTQ or FASTQ files (removing barcodes or noise).
• FASTQ/A Renamer--Renames the sequence identifiers in FASTQ/A file.
• FASTQ/A Clipper--Removing sequencing adapters / linkers
• FASTQ/A Reverse-Complement--Producing the Reverse-complement of each sequence in a FASTQ/FASTA file.
• FASTQ/A Barcode splitter--Splitting a FASTQ/FASTA files containning multiple samples
• FASTA Formatter--changes the width of sequences line in a FASTA file
• FASTA Nucleotide Changer--Convets FASTA sequences from/to RNA/DNA
• FASTQ Quality Filter--Filters sequences based on quality
• FASTQ Quality Trimmer--Trims (cuts) sequences based on quality
• FASTQ Masker--Masks nucleotides with 'N' (or other character) based on quality