HTJoinSolver 0.4A – Human Immunoglobulin VDJ Partitioning

HTJoinSolver 0.4A

:: DESCRIPTION

HTJoinSolver is a pubically available application to assist researchers in partitioning the V(D)J regions of immunogloblulin.

::DEVELOPER

the Office of Intramural ResearchCenter for Information Technology in collaboration with the Vaccine Research Center at the National Institute of Allergy and Infectious Diseases.

:: SCREENSHOTS

HTJoinSolver

:: REQUIREMENTS

  • Linux / Windows/ MacOsX
  • JRE

:: DOWNLOAD

 HTJoinSolver

:: MORE INFORMATION

Citation

HTJoinSolver: Human immunoglobulin VDJ partitioning using approximate dynamic programming constrained by conserved motifs.
Russ DE, Ho KY, Longo NS.
BMC Bioinformatics. 2015 May 23;16(1):170. doi: 10.1186/s12859-015-0589-x.

BASELINe 1.3 – Bayesian Estimation of Antigen-Driven Selection in Immunoglobulin Sequences

BASELINe 1.3

:: DESCRIPTION

BASELINe, a new computational framework for Bayesian estimation of Antigen-driven selection in Immunoglobulin sequences, provides a more intuitive means of analyzing selection by actually quantifying it.

::DEVELOPER

Kleinstein Lab

:: SCREENSHOTS

N/A

:: REQUIREMENTS

  • Linux / Windows/ MacOsX
  • R

:: DOWNLOAD

 BASELINe

:: MORE INFORMATION

Citation

Nucleic Acids Res. 2012 Sep 1;40(17):e134. Epub 2012 May 27.
Quantifying selection in high-throughput Immunoglobulin sequencing data sets.
Yaari G1, Uduman M, Kleinstein SH.

Change-O 0.4.6 – Analyzing Immunoglobulin Sequences

Change-O 0.4.6

:: DESCRIPTION

Change-O is a collection of tools for analyzing immunoglobulin sequences.

::DEVELOPER

the Kleinstein Lab

:: SCREENSHOTS

N/A

:: REQUIREMENTS

  • Linux
  • R

:: DOWNLOAD

 Change-O

:: MORE INFORMATION

Citation

Change-O: a toolkit for analyzing large-scale B cell immunoglobulin repertoire sequencing data.
Gupta NT, Vander Heiden J, Uduman M, Gadala-Maria D, Yaari G, Kleinstein SH.
Bioinformatics. 2015 Jun 10. pii: btv359.

IGPred – Identifying Immunoglobulins

IGPred

:: DESCRIPTION

The web-server IGPred was developed to identify the immunoglobulins (antibodies) based on the sequence information.

::DEVELOPER

LinDing Group

:: SCREENSHOTS

N/A

:: REQUIREMENTS

  • Web Browser

:: DOWNLOAD

 NO

:: MORE INFORMATION

Citation

Identification of immunoglobulins using Chou’s pseudo amino acid composition with feature selection technique.
Tang H, Chen W, Lin H.
Mol Biosyst. 2016 Feb 17.

IgSimulator – Versatile tool for Simulation of Immunoglobulin Repertoire

IgSimulator

:: DESCRIPTION

IgSimulator is a tool for simulation of antibody repertoire and Ig-seq library. IgSimulator is designed for testing and benchmarking tools for reconstruction of Ig repertoires.

::DEVELOPER

Yana Safonova (Center for Algorithmic Biotechnology, Saint Petersburg State University).

:: SCREENSHOTS

N/A

:: REQUIREMENTS

  • Linux
  • Python

:: DOWNLOAD

 IgSimulator

:: MORE INFORMATION

Citation

IgSimulator: a versatile immunosequencing simulator.
Safonova Y, Lapidus A, Lill J.
Bioinformatics. 2015 May 25. pii: btv326.