This is the command seqtk that can be run in the OnWorks free hosting provider using one of our multiple free online workstations such as Ubuntu Online, Fedora Online, Windows online emulator or MAC OS online emulator
PROGRAM:
NAME
seqtk - sampling, trimming, fastq2fasta, subsequence, reverse complement
SYNOPSIS
seqtk <command> <arguments>
DESCRIPTION
Currently, seqtk supports quality based trimming with the phred algorithm, converting
fastq to fasta, reverse complementing sequences, extracting or masking subsequences in
regions given in a BED/name list file, and more. It contains a subsampling module to
sample exactly n sequences or a fraction of sequences.
Seqtk supports both fasta and fastq input files, which can be optionally gzip compressed.
COMMANDS
Command: seq common transformation of FASTA/Q
comp get the nucleotide composition of FASTA/Q
sample subsample sequences
subseq extract subsequences from FASTA/Q
trimfq trim FASTQ using the Phred algorithm
hety regional heterozygosity
mutfa point mutate FASTA at specified positions
mergefa
merge two FASTA/Q files
randbase
choose a random base from hets
cutN cut sequence at long N
listhet
extract the position of each het
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