KRISP host many of the tools that were developed in Bioafrica.net (Prof. Tulio de Oliveira old group website). The great majority of our tools are freely and openly accessible. In addition, we also provide a linux cluster so the tools can be used free of charge.
Blast using local databases at our servers. It includes HIV Genbank, Subtype Reference Dataset and HXB2 reference sequence databases
Online web version for BlastAlign software application
A new version of the phylogenetic bootstrap in which the presence of inferred branches in replications is measured using a gradual 'transfer' distance rather than the binary presence or absence index used in Felsenstein's original version. The resulting supports are higher and do not induce falsely supported branches.
This is the first version of the Chikungunya typing tool, which uses phylogenetic analysis to identify the species and genotype of the virus.
This is the first version of our Arbovirus typing tool for Chikungunya, Dengue, Yellow Fever and Zika
Tool to determine quality and contamination of sequences using local Blast
Contains information about each HIV-1 gene product in regard to expression, functional activities, and interactions with viral and host macromolecules
Phylogenetic tool to identify the Hepatitis B Virus (HBV) subtypes and recombinants. Query sequences are analysed for recombination using bootscanning methods.
Online web interface that provides an interface to identify phylotypes and allows for exploratory analyses of very large data sets.
This tool is designed to use phylogenetic methods in order to identify the HIV-1 subtype of a specific sequence. The sequence is analysed for recombination using bootscanning methods. The version 3 contains new CRFs (CRF01_AE to CRF47_BF).
Phylogenetic tool to identify the HIV-1 subtypes and recombinants. Query sequences are analysed for recombination using bootscanning methods. The version 3 contains new CRFs (CRF01_AE to CRF47_BF).
The RNA Virus Database is a database and web application describing the genome organization and providing analytical tools for all known species of RNA virus.
A curated public database designed to represent, store, and analyze the divergent forms of data underlying HIV drug resistance
This is the first version of the Yellow Fever typing tool, which uses phylogenetic analysis to identify the species and genotype of the virus.
This is the first version of the Zika typing tool, which uses phylogenetic analysis to identify the species and genotype of the virus.
KRISP can provide computational services to both academic and to industrial partners. We have access to four HPCs (see KRISP Toys). We have access a wide range of standard life science applications (many optimized for the HPC environment) and databases are available. Additional applications or databases can be hosted on request. Arrangements can also be made to secure proprietary data. Please contact us to discuss collaborations, consultancy and grants applications.