BSPAT statistics

To access cutting-edge analytics on consensus tools, life science contexts and associated fields, you will need to subscribe to our premium service.

Subscribe
info

Citations per year

Citations chart
info

Popular tool citations

chevron_left Read alignment Methylation scoring Quality control chevron_right
Popular tools chart
info

Tool usage distribution map

Tool usage distribution map
info

Associated diseases

Associated diseases

BSPAT specifications

Information


Unique identifier OMICS_07897
Name BSPAT
Alternative name Bisulfite Sequencing Pattern Analysis Tool
Software type Package/Module
Interface Command line interface
Restrictions to use None
Operating system Unix/Linux, Mac OS, Windows
Programming languages Java
License GNU General Public License version 2.0
Computer skills Advanced
Stability Stable
Requirements
Tomcat, Bismark, Perl, Bowtie
Maintained Yes

Download


Versioning


Add your version

Maintainer


  • person_outline Jing Li <>

Information


Unique identifier OMICS_07897
Name BSPAT
Alternative name Bisulfite Sequencing Pattern Analysis Tool
Interface Web user interface
Restrictions to use None
Programming languages Java
Computer skills Basic
Stability Stable
Maintained Yes

Maintainer


  • person_outline Jing Li <>

Publication for Bisulfite Sequencing Pattern Analysis Tool

BSPAT in publications

 (4)
PMCID: 5558660
PMID: 28814981
DOI: 10.1186/s13148-017-0386-7

[…] (> q30) and for read lengths (> 100 bp) and converted into fasta format in a galaxy project environment []. to evaluate the methylation ratio of each cpg, we loaded fasta files into the bisulfite sequencing pattern analysis tool (bspat—http://cbc.case.edu/bspat/index.jsp) []. in parallel, we used perl to create single specific files for every interrogated gene, […]

PMCID: 4926291
PMID: 27358654
DOI: 10.1186/s13072-016-0075-3

[…] bisulfite-treated reads analysis tool (burrows–wheeler transform), ucsc genome browser university of california santa cruz genome browser, wbsa web service for bisulfite sequencing data analysis, bspat bisulfite sequencing pattern analysis tool, gbsa genome bisulfite sequencing analyser, igv integrative genomics viewer, saap-rrbs streamlined analysis and annotation pipeline for rrbs data, […]

PMCID: 4882773
PMID: 27230660
DOI: 10.1186/s12889-016-3121-y

[…] our dataset., convolution prior was adopted for φ[i] and ν[j,i] [], denoting they both may be decomposed into the sum of unstructured (e.g. ush, ssh) and spatial structured random effects (e.g. bind, bspat):7\documentclass[12pt]{minimal} \usepackage{amsmath} \usepackage{wasysym} \usepackage{amsfonts} \usepackage{amssymb} \usepackage{amsbsy} \usepackage{mathrsfs} \use […]

PMCID: 4358301
PMID: 25885648
DOI: 10.1186/s12889-015-1494-y

[…] (x1, x2) refers to the coordinates of the location of the data point, latitude and longitude, or location centroids based on the map. the prior for bspat, ij = (bspat,11, bspat,12, …, bspat,kk) is based on spatial smoothness priors common in spatial statistics (see []). the most commonly used prior specification based on the four nearest […]


To access a full list of publications, you will need to upgrade to our premium service.

BSPAT institution(s)
Department of Electrical Engineering and Computer Science, Case Western Reserve University, Cleveland, OH, USA; Genomic Medicine Institute, Lerner Research Institute, Cleveland Clinic Foundation, Cleveland, OH, USA

BSPAT reviews

star_border star_border star_border star_border star_border
star star star star star

Be the first to review BSPAT