Browse all tools
  • cat

    cat - concatenate files and print on the standard output.

  • echo

    echo - display a line of text

  • gawk

    pattern scanning and processing language

  • md5sum

    Print or check MD5 (128-bit) checksums.

  • sort

    Write sorted concatenation of all FILE(s) to standard output. With no FILE, or when FILE is -, read standard input.

  • tr

    Translate, squeeze, and/or delete characters from standard input, writing to standard output.

  • samtools

    Samtools is a set of utilities that manipulate alignments in the BAM format. It imports from and exports to the SAM (Sequence Alignment/Map) format, does sorting, merging and indexing, and allows to retrieve reads in any regions swiftly. Samtools is designed to work on a stream. It regards an input file `-' as the standard input (stdin) and an output file `-' as the standard output (stdout). Seve

  • STAR

    Aligns RNA-seq reads to a reference genome using uncompressed suffix arrays. STAR has a potential for accurately aligning long (several kilobases) reads that are emerging from the third-generation sequencing technologies.

  • trimmomatic

    Trimmomatic is a fast, multithreaded command line tool that can be used to trim and crop Illumina (FASTQ) data as well as to remove adapters. These adapters can pose a real problem depending on the library preparation and downstream application. There are two major modes of the program: Paired end mode and Single end mode. The paired end mode will maintain correspondence of read pairs and also use