gapfiller online with Winfy

We have hosted the application gapfiller in order to run this application in our online workstations with Wine or directly.

Quick description about gapfiller:

GapFiller is a seed-and-extend local assembler to fill the gap within paired reads.
It can be used for both DNA and RNA and it has been tested on Illumina data.
GapFiller can be used whenever a sequence is to be assembled starting from reads lying on its ends, provided a loose estimate of sequence length.

  • Supported input format: FASTQ (.gz, .bz2), FASTA (.gz, .bz2), SAM, BAM
  • Highly customizable assembly parameters
  • Possibility to specify different datasets for seeding and assembly
  • Possibility to store layout information (read position and orientation within assembled contigs)

User interface: Command-line.
Programming Language: C++.

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