Tag: Parasite

EstMoi 1.03 – Estimating Multiplicity of Infection using Parasite Deep Sequencing data

EstMoi 1.03

:: DESCRIPTION

estMOI is a per-based software developed to estimate Multiplicity of Infection (MOI) in parasite genomic sequence data. It is primarily developed to address the limitations of current laboratory (PCR) based estimates of multiplicity using high throughput sequence data.

::DEVELOPER

PathogenSeq

:: SCREENSHOTS

N/A

:: REQUIREMENTS

  • Linux

:: DOWNLOAD

 EstMoi

:: MORE INFORMATION

Citation

Bioinformatics. 2014 May 1;30(9):1292-4. doi: 10.1093/bioinformatics/btu005. Epub 2014 Jan 17.
estMOI: estimating multiplicity of infection using parasite deep sequencing data.
Assefa SA1, Preston MD, Campino S, Ocholla H, Sutherland CJ, Clark TG.

iSMP-Grey – Predicting Secretory Proteins of Malaria Parasite Using grey- PsePSSM and SVM

iSMP-Grey

:: DESCRIPTION

The web-server iSMP-Grey was establish for identifying uncharacterized proteins as secretory proteins of malaria parasite or not according to their evolutionary information in form of position specific scoring matrix (PSSM).

::DEVELOPER

Xiao Lab

:: SCREENSHOTS

n/a

:: REQUIREMENTS

  • Web browser

:: DOWNLOAD

 NO

:: MORE INFORMATION

Citation

PLoS One. 2012;7(11):e49040. doi: 10.1371/journal.pone.0049040. Epub 2012 Nov 26.
Predicting secretory proteins of malaria parasite by incorporating sequence evolution information into pseudo amino acid composition via grey system model.
Lin WZ1, Fang JA, Xiao X, Chou KC.

Companion – Easy and reliable Parasite Genome Annotation

Companion

:: DESCRIPTION

Companion is a web server providing parasite genome annotation as a service using a reference-based approach.

::DEVELOPER

Pathogen Informatics, Wellcome Trust Sanger Institute

:: SCREENSHOTS

N/A

:: REQUIREMENTS

  • Web browser

:: DOWNLOAD

NO

:: MORE INFORMATION

Citation

Steinbiss S, Silva-Franco F, Brunk B, Foth B, Hertz-Fowler C et al.
Companion: a web server for annotation and analysis of parasite genomes.
Nucleic Acids Res. 2016 Jul 8;44(W1):W29-34. doi: 10.1093/nar/gkw292. Epub 2016 Apr 21.