Hi, On Mon, Sep 12, 2011 at 2:01 PM, wang peter <wng.pe...@gmail.com> wrote: > dear sir or madam: > who have tag-clean software? > i want to compare the results by using R coding with the results by using > software. > what i will do include remove low quality reads and remove 3' adaptors
Look at the fastx_toolkit: http://hannonlab.cshl.edu/fastx_toolkit/ In particular, you want to look at `fastx_clipper` to remove 3'adaters and `fastq_quality_trimmer` to remove low scoring bases. `cutadapt` is another tool that removes adapters as well: http://code.google.com/p/cutadapt/ -steve -- Steve Lianoglou Graduate Student: Computational Systems Biology | Memorial Sloan-Kettering Cancer Center | Weill Medical College of Cornell University Contact Info: http://cbio.mskcc.org/~lianos/contact _______________________________________________ Bioc-sig-sequencing mailing list Bioc-sig-sequencing@r-project.org https://stat.ethz.ch/mailman/listinfo/bioc-sig-sequencing
