NAME

       obisplit - description of obisplit

       obisplit  splits the input sequence file in a set of subfiles according to the values of a
       given attribute. The generated subfiles are named  after  the  values  of  the  attribute,
       possibly preceded by a prefix (-p option). The sequence records for which the attribute is
       missing are discarded by default, or put in a file whose name is set using the -u option.
          Example:

                 > obisplit -p experiment_ -t mode

              The above command splits the sequence input file according to the  mode  attribute.
              This  attribute  is  created  by the solexapairend tool and its value can be set to
              either joined or alignment. The prefix experiment_ is put before each subfile name.
              Two subfiles will thus be created: experiment_joined and experiment_alignment.

OBISPLIT SPECIFIC OPTIONS

       -p <PREFIX FILENAME>, --prefix=<PREFIX FILENAME>
              Prefix added to each subfile name.

       -t <KEY>, --tag-name=<KEY>
              Attribute key used to split the sequence file.

       -u <FILENAME>, --undefined=<FILENAME>
              Name of the file where sequence records without attribute <KEY> are stored.

OPTIONS TO SPECIFY INPUT FORMAT

   Restrict the analysis to a sub-part of the input file
       --skip <N>
              The  N  first  sequence records of the file are discarded from the analysis and not
              reported to the output file

       --only <N>
              Only the N next sequence records of the file are analyzed. The following  sequences
              in the file are neither analyzed, neither reported to the output file.  This option
              can be used conjointly with the –skip option.

   Sequence annotated format
       --genbank
              Input file is in genbank format.

       --embl Input file is in embl format.

   fasta related format
       --fasta
              Input file is in fasta format (including OBITools fasta extensions).

   fastq related format
       --sanger
              Input  file  is  in  Sanger  fastq  format  (standard  fastq  used  by  HiSeq/MiSeq
              sequencers).

       --solexa
              Input file is in fastq format produced by Solexa (Ga IIx) sequencers.

   ecoPCR related format
       --ecopcr
              Input file is in ecoPCR format.

       --ecopcrdb
              Input is an ecoPCR database.

   Specifying the sequence type
       --nuc  Input file contains nucleic sequences.

       --prot Input file contains protein sequences.

COMMON OPTIONS

       -h, --help
              Shows this help message and exits.

       --DEBUG
              Sets logging in debug mode.

AUTHOR

       The OBITools Development Team - LECA

COPYRIGHT

       2019 - 2015, OBITool Development Team

 1.02 12                                   Jan 28, 2019                               OBISPLIT(1)