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Bandage: interactive visualization of de novo genome assemblies

Bioinformatics, 2015-10, Vol.31 (20), p.3350-3352

2015

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ePlant: Visualizing and Exploring Multiple Levels of Data for Hypothesis Generation in Plant Biology

The Plant cell, 2017-08, Vol.29 (8), p.1806-1821

2017

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Manta: rapid detection of structural variants and indels for germline and cancer sequencing applications

Bioinformatics, 2016-04, Vol.32 (8), p.1220-1222

2016

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GSDS 2.0: an upgraded gene feature visualization server

Bioinformatics, 2015-04, Vol.31 (8), p.1296-1297

2015

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NMRFAM-SPARKY: enhanced software for biomolecular NMR spectroscopy

Bioinformatics, 2015-04, Vol.31 (8), p.1325-1327

2015

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Introducing decorated HODs: modelling assembly bias in the galaxy–halo connection

Monthly notices of the Royal Astronomical Society, 2016-08, Vol.460 (3), p.2552-2570

2016

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PHYLUCE is a software package for the analysis of conserved genomic loci

Bioinformatics, 2016-03, Vol.32 (5), p.786-788

Faircloth, Brant C

2016

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ASTRAL: genome-scale coalescent-based species tree estimation

Bioinformatics, 2014-09, Vol.30 (17), p.i541-i548

2014

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destiny: diffusion maps for large-scale single-cell data in R

Bioinformatics, 2016-04, Vol.32 (8), p.1241-1243

2016

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Forna (force-directed RNA): Simple and effective online RNA secondary structure diagrams

Bioinformatics, 2015-10, Vol.31 (20), p.3377-3379

2015

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Specific identification and quantification of circular RNAs from sequencing data

Bioinformatics, 2016-04, Vol.32 (7), p.1094-1096

2016

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DTI-CDF: a cascade deep forest model towards the prediction of drug-target interactions based on hybrid features

Briefings in bioinformatics, 2021-01, Vol.22 (1), p.451-462

2021

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Machine learning and statistical methods for clustering single-cell RNA-sequencing data

Briefings in bioinformatics, 2020-07, Vol.21 (4), p.1209-1223

2020

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tcsBU: a tool to extend TCS network layout and visualization

Bioinformatics, 2016-02, Vol.32 (4), p.627-628

2016

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kSNP3.0: SNP detection and phylogenetic analysis of genomes without genome alignment or reference genome

Bioinformatics, 2015-09, Vol.31 (17), p.2877-2878

2015

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Workflow4Metabolomics: a collaborative research infrastructure for computational metabolomics

Bioinformatics, 2015-05, Vol.31 (9), p.1493-1495

2015

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Unified representation of genetic variants

Bioinformatics, 2015-07, Vol.31 (13), p.2202-2204

2015

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EpiSegMix: a flexible distribution hidden Markov model with duration modeling for chromatin state discovery

Bioinformatics (Oxford, England), 2024-03, Vol.40 (4)

2024

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Poretools: a toolkit for analyzing nanopore sequence data

Bioinformatics, 2014-12, Vol.30 (23), p.3399-3401

2014

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3Dmol.js: molecular visualization with WebGL

Bioinformatics, 2015-04, Vol.31 (8), p.1322-1324

2015

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PharmacoGx: an R package for analysis of large pharmacogenomic datasets

Bioinformatics, 2016-04, Vol.32 (8), p.1244-1246

2016

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Data2Dynamics: a modeling environment tailored to parameter estimation in dynamical systems

Bioinformatics, 2015-11, Vol.31 (21), p.3558-3560

2015

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A standardized framework for testing the performance of sleep-tracking technology: step-by-step guidelines and open-source code

Sleep (New York, N.Y.), 2021-02, Vol.44 (2), p.1

2021

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Consed: a graphical editor for next-generation sequencing

Bioinformatics, 2013-11, Vol.29 (22), p.2936-2937

2013

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DeepDDS: deep graph neural network with attention mechanism to predict synergistic drug combinations

Briefings in bioinformatics, 2022-01, Vol.23 (1)

2022

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Bandage: interactive visualization of de novo genome assemblies

ePlant: Visualizing and Exploring Multiple Levels of Data for Hypothesis Generation in Plant Biology

Manta: rapid detection of structural variants and indels for germline and cancer sequencing applications

GSDS 2.0: an upgraded gene feature visualization server

NMRFAM-SPARKY: enhanced software for biomolecular NMR spectroscopy

Introducing decorated HODs: modelling assembly bias in the galaxy–halo connection

PHYLUCE is a software package for the analysis of conserved genomic loci

ASTRAL: genome-scale coalescent-based species tree estimation

destiny: diffusion maps for large-scale single-cell data in R

Forna (force-directed RNA): Simple and effective online RNA secondary structure diagrams

Specific identification and quantification of circular RNAs from sequencing data

DTI-CDF: a cascade deep forest model towards the prediction of drug-target interactions based on hybrid features

Machine learning and statistical methods for clustering single-cell RNA-sequencing data

tcsBU: a tool to extend TCS network layout and visualization

kSNP3.0: SNP detection and phylogenetic analysis of genomes without genome alignment or reference genome

Workflow4Metabolomics: a collaborative research infrastructure for computational metabolomics

Unified representation of genetic variants

EpiSegMix: a flexible distribution hidden Markov model with duration modeling for chromatin state discovery

Poretools: a toolkit for analyzing nanopore sequence data

3Dmol.js: molecular visualization with WebGL

PharmacoGx: an R package for analysis of large pharmacogenomic datasets

Data2Dynamics: a modeling environment tailored to parameter estimation in dynamical systems

A standardized framework for testing the performance of sleep-tracking technology: step-by-step guidelines and open-source code

Consed: a graphical editor for next-generation sequencing

DeepDDS: deep graph neural network with attention mechanism to predict synergistic drug combinations

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