jContigSort

jContigSort

introduction

Easy and rapid ordering contigs.

jContigSort can be used to ordering contig base and reference genome. It generates summary statistics of your contigs sequences log files. It is easily configurable and provides a user-friendly interface.

Input and output formats

You can use genome reference data in Fasta or GenBank format as input.

The contigs files can be read and write in multi-fasta format files.

Enviroment

ContigSort developed in java plataform, you can use in most operating systems.

For the assembly of bacterial organisms, we observed a memory consumption of about 3Gb RAM.

Java Virtual Machine required

Open-source

ContigSort is open-source, you can use, modify and redistribute freely.

BSD license

News and Updates

12/2011 - New version (1.3) was published, those versions fix one bug and one change in format log file.

    - (bug fixed) Changed the initial positions of the centroids for positioning proportional ordered set, the k-means algorithm.

10/2011 - Release of web version 0.1:New web pages developed and published.
jContigSort: the first version is released for download on sourceforge.

Project members

Project Admins:

• Dieval Guizelini

Roberto Tadeu Raittz
Fabio de Oliveira Pedrosa
Jeroniza Nunes Marchaukoski
Juliana Helena Tibães
Maria Berenice R Steffens
Emanuel M de Souza
Vanely de Souza

Free download