Viola 1.0.0.dev10 – Structural Variant Signature Extractor

Viola 1.0.0.dev10

:: DESCRIPTION

Viola is a flexible and powerful python package designed specifically for analysis of genomic structural variant (SV) signatures.

::DEVELOPER

Viola team

:: SCREENSHOTS

N/A

:: REQUIREMENTS

Linux / Windows/ MacOsX
Python

:: DOWNLOAD

Viola

:: MORE INFORMATION

Citation

Sugita I, Matsuyama S, Dobashi H, Komura D, Ishikawa S.
Viola: a structural variant signature extractor with user-defined classifications.
Bioinformatics. 2021 Sep 17:btab662. doi: 10.1093/bioinformatics/btab662. Epub ahead of print. PMID: 34534268.

SPECifIC – Sub-Pathway Extractor and Enricher

SPECifIC

:: DESCRIPTION

SPECifIC is a network-based systems biology tool capable of extracting disease-perturbed subpathways within pathway networks in connection with expression data.

::DEVELOPER

SPECifIC team

:: SCREENSHOTS

N/A

:: REQUIREMENTS

Linux / web server

:: DOWNLOAD

SPECifIC

:: MORE INFORMATION

Citation:

Detecting Disease Specific Pathway Substructures through an Integrated Systems Biology Approach.
Alaimo S, Marceca GP, Ferro A, Pulvirenti A.
Noncoding RNA. 2017 Apr 19;3(2). pii: E20. doi: 10.3390/ncrna3020020.

IMEx 2.0 – Imperfect Microsatellite Extractor

IMEx 2.0

:: DESCRIPTION

IMEx is a tool for extracting Perfect, Imperfect and Compound Microsatelites or Simple Sequence Repeats (SSR’s) or Short Tandem Repeats (STR’s) from genome sequences.

::DEVELOPER

IMEx Team

:: SCREENSHOTS

:: REQUIREMENTS

Windows / Linux / MacOsX
Java

:: DOWNLOAD

IMEx

:: MORE INFORMATION

Citation

Suresh B. Mudunuri and Hampapathalu. A. Nagarajaram (2007)
IMEx: Imperfect Microsatellite Extractor.
Bioinformatics 23(10):1181-1187.