jContigSort. bioinformatics tool developed in the Graduate Program in Bioinformatics at the UFPR

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

jContigSort 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

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

BSD license

News and Updates

Here you will find release notes and news related to jContigSort.

10/2011

Release of web version 0.1:New web pages developed and published.

jContigSort: the first version is released for download on sourceforge.

References

X-meeting 2011

D Guizelini, F O Pedrosa, J H Tibães, J N Marchaukoski, M B R Steffens, E M de Souza, V de Souza, R T Raittz. jContigSort: a new computer application for contigs ordering. In: 7th International Conference of The Brazilian Associaciation for Bioinformatics and Computacional Biology, 2011, Floarianopolis. Abstract book, 2011.