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GapBlaster-A Graphical Gap Filler for Prokaryote Genomes

PloS one, 2016-05, Vol.11 (5), p.e0155327-e0155327

2016

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Automated cell tracking and analysis in phase-contrast videos (iTrack4U): development of Java software based on combined mean-shift processes

PloS one, 2013-11, Vol.8 (11), p.e81266-e81266

2013

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BioPipeline Creator-a user-friendly Java-based GUI for managing and customizing biological data pipelines

Scientific reports, 2024-07, Vol.14 (1), p.16572-8, Article 16572

2024

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SBGNViz: A Tool for Visualization and Complexity Management of SBGN Process Description Maps

PloS one, 2015-06, Vol.10 (6), p.e0128985-e0128985

2015

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MyDas, an extensible Java DAS server

PloS one, 2012-09, Vol.7 (9), p.e44180-e44180

2012

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JNSViewer-A JavaScript-based Nucleotide Sequence Viewer for DNA/RNA secondary structures

PloS one, 2017-06, Vol.12 (6), p.e0179040-e0179040

2017

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BlasterJS: A novel interactive JavaScript visualisation component for BLAST alignment results

PloS one, 2018-10, Vol.13 (10), p.e0205286-e0205286

2018

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Full-length genome characterization and phylogenetic analysis of SARS-CoV-2 virus strains from Yogyakarta and Central Java, Indonesia

PeerJ (San Francisco, CA), 2020-12, Vol.8, p.e10575-e10575, Article e10575

2020

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GUIdock: Using Docker Containers with a Common Graphics User Interface to Address the Reproducibility of Research

PloS one, 2016-04, Vol.11 (4), p.e0152686-e0152686

2016

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TreeVector: scalable, interactive, phylogenetic trees for the web

PloS one, 2010-01, Vol.5 (1), p.e8934-e8934

2010

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An integrated SNP mining and utilization (ISMU) pipeline for next generation sequencing data

PloS one, 2014-07, Vol.9 (7), p.e101754-e101754

2014

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Tn-seq explorer: a tool for analysis of high-throughput sequencing data of transposon mutant libraries

PloS one, 2015-05, Vol.10 (5), p.e0126070-e0126070

2015

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CyNetSVM: A Cytoscape App for Cancer Biomarker Identification Using Network Constrained Support Vector Machines

PloS one, 2017-01, Vol.12 (1), p.e0170482-e0170482

2017

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CAGO: a software tool for dynamic visual comparison and correlation measurement of genome organization

PloS one, 2011-11, Vol.6 (11), p.e27080-e27080

2011

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iPiG: integrating peptide spectrum matches into genome browser visualizations

PloS one, 2012-12, Vol.7 (12), p.e50246-e50246

2012

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Genometa--a fast and accurate classifier for short metagenomic shotgun reads

PloS one, 2012-08, Vol.7 (8), p.e41224-e41224

2012

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A phenomenological model for predicting melting temperatures of DNA sequences

PloS one, 2010-08, Vol.5 (8), p.e12433-e12433

2010

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Program Code Generator for Cardiac Electrophysiology Simulation with Automatic PDE Boundary Condition Handling

PloS one, 2015-09, Vol.10 (9), p.e0136821-e0136821

2015

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NMRDSP: an accurate prediction of protein shape strings from NMR chemical shifts and sequence data

PloS one, 2013-12, Vol.8 (12), p.e83532-e83532

2013

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CytoKavosh: a cytoscape plug-in for finding network motifs in large biological networks

PloS one, 2012-08, Vol.7 (8), p.e43287-e43287

2012

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BG7: a new approach for bacterial genome annotation designed for next generation sequencing data

PloS one, 2012-11, Vol.7 (11), p.e49239-e49239

2012

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DockerBIO: web application for efficient use of bioinformatics Docker images

PeerJ (San Francisco, CA), 2018-11, Vol.6, p.e5954-e5954, Article e5954

2018

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HSRA: Hadoop-based spliced read aligner for RNA sequencing data

PloS one, 2018-07, Vol.13 (7), p.e0201483-e0201483

2018

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LipidHome: a database of theoretical lipids optimized for high throughput mass spectrometry lipidomics

PloS one, 2013-05, Vol.8 (5), p.e61951-e61951

2013

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ZODET: software for the identification, analysis and visualisation of outlier genes in microarray expression data

PloS one, 2014-01, Vol.9 (1), p.e81123-e81123

2014

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GapBlaster-A Graphical Gap Filler for Prokaryote Genomes

Automated cell tracking and analysis in phase-contrast videos (iTrack4U): development of Java software based on combined mean-shift processes

BioPipeline Creator-a user-friendly Java-based GUI for managing and customizing biological data pipelines

SBGNViz: A Tool for Visualization and Complexity Management of SBGN Process Description Maps

MyDas, an extensible Java DAS server

JNSViewer-A JavaScript-based Nucleotide Sequence Viewer for DNA/RNA secondary structures

BlasterJS: A novel interactive JavaScript visualisation component for BLAST alignment results

Full-length genome characterization and phylogenetic analysis of SARS-CoV-2 virus strains from Yogyakarta and Central Java, Indonesia

GUIdock: Using Docker Containers with a Common Graphics User Interface to Address the Reproducibility of Research

TreeVector: scalable, interactive, phylogenetic trees for the web

An integrated SNP mining and utilization (ISMU) pipeline for next generation sequencing data

Tn-seq explorer: a tool for analysis of high-throughput sequencing data of transposon mutant libraries

CyNetSVM: A Cytoscape App for Cancer Biomarker Identification Using Network Constrained Support Vector Machines

CAGO: a software tool for dynamic visual comparison and correlation measurement of genome organization

iPiG: integrating peptide spectrum matches into genome browser visualizations

Genometa--a fast and accurate classifier for short metagenomic shotgun reads

A phenomenological model for predicting melting temperatures of DNA sequences

Program Code Generator for Cardiac Electrophysiology Simulation with Automatic PDE Boundary Condition Handling

NMRDSP: an accurate prediction of protein shape strings from NMR chemical shifts and sequence data

CytoKavosh: a cytoscape plug-in for finding network motifs in large biological networks

BG7: a new approach for bacterial genome annotation designed for next generation sequencing data

DockerBIO: web application for efficient use of bioinformatics Docker images

HSRA: Hadoop-based spliced read aligner for RNA sequencing data

LipidHome: a database of theoretical lipids optimized for high throughput mass spectrometry lipidomics

ZODET: software for the identification, analysis and visualisation of outlier genes in microarray expression data

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