This is the Linux app named GapFiller whose latest release can be downloaded as GapFiller-1.1.1.zip. It can be run online in the free hosting provider OnWorks for workstations.
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GapFiller
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DESCRIPTION
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.
Features
- 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++
Categories
This is an application that can also be fetched from https://sourceforge.net/projects/gapfiller/. It has been hosted in OnWorks in order to be run online in an easiest way from one of our free Operative Systems.