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1
Network-constrained regularization and variable selection for analysis of genomic data
Network-constrained regularization and variable selection for analysis of genomic data
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Network-constrained regularization and variable selection for analysis of genomic data

Bioinformatics, 2008-05, Vol.24 (9), p.1175-1182 [Peer Reviewed Journal]

The Author 2008. Published by Oxford University Press. All rights reserved. For Permissions, please email: journals.permissions@oxfordjournals.org 2008 ;2008 INIST-CNRS ;The Author 2008. Published by Oxford University Press. All rights reserved. For Permissions, please email: journals.permissions@oxfordjournals.org ;ISSN: 1367-4803 ;EISSN: 1460-2059 ;EISSN: 1367-4811 ;DOI: 10.1093/bioinformatics/btn081 ;PMID: 18310618 ;CODEN: BOINFP

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2
IDBA-UD: a de novo assembler for single-cell and metagenomic sequencing data with highly uneven depth
IDBA-UD: a de novo assembler for single-cell and metagenomic sequencing data with highly uneven depth
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IDBA-UD: a de novo assembler for single-cell and metagenomic sequencing data with highly uneven depth

Bioinformatics (Oxford, England), 2012-06, Vol.28 (11), p.1420-1428 [Peer Reviewed Journal]

2015 INIST-CNRS ;ISSN: 1367-4803 ;EISSN: 1367-4811 ;DOI: 10.1093/bioinformatics/bts174 ;PMID: 22495754

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3
CD-HIT: accelerated for clustering the next-generation sequencing data
CD-HIT: accelerated for clustering the next-generation sequencing data
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CD-HIT: accelerated for clustering the next-generation sequencing data

Bioinformatics, 2012-12, Vol.28 (23), p.3150-3152 [Peer Reviewed Journal]

2014 INIST-CNRS ;The Author 2012. Published by Oxford University Press. 2012 ;ISSN: 1367-4803 ;EISSN: 1367-4811 ;EISSN: 1460-2059 ;DOI: 10.1093/bioinformatics/bts565 ;PMID: 23060610

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4
GenAlEx 6.5: genetic analysis in Excel. Population genetic software for teaching and research—an update
GenAlEx 6.5: genetic analysis in Excel. Population genetic software for teaching and research—an update
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GenAlEx 6.5: genetic analysis in Excel. Population genetic software for teaching and research—an update

Bioinformatics (Oxford, England), 2012-10, Vol.28 (19), p.2537-2539 [Peer Reviewed Journal]

2015 INIST-CNRS ;The Author(s) 2012. Published by Oxford University Press. 2012 ;ISSN: 1367-4803 ;EISSN: 1367-4811 ;DOI: 10.1093/bioinformatics/bts460 ;PMID: 22820204

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5
MSIsensor: microsatellite instability detection using paired tumor-normal sequence data
MSIsensor: microsatellite instability detection using paired tumor-normal sequence data
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MSIsensor: microsatellite instability detection using paired tumor-normal sequence data

Bioinformatics, 2014-04, Vol.30 (7), p.1015-1016 [Peer Reviewed Journal]

The Author 2013. Published by Oxford University Press. All rights reserved. For Permissions, please e-mail: journals.permissions@oup.com 2013 ;ISSN: 1367-4803 ;EISSN: 1367-4811 ;EISSN: 1460-2059 ;DOI: 10.1093/bioinformatics/btt755 ;PMID: 24371154

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6
Geneious Basic: An integrated and extendable desktop software platform for the organization and analysis of sequence data
Geneious Basic: An integrated and extendable desktop software platform for the organization and analysis of sequence data
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Geneious Basic: An integrated and extendable desktop software platform for the organization and analysis of sequence data

Bioinformatics (Oxford, England), 2012-06, Vol.28 (12), p.1647-1649 [Peer Reviewed Journal]

2015 INIST-CNRS ;The Author(s) 2012. Published by Oxford University Press. 2012 ;ISSN: 1367-4803 ;EISSN: 1367-4811 ;DOI: 10.1093/bioinformatics/bts199 ;PMID: 22543367

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7
SortMeRNA: fast and accurate filtering of ribosomal RNAs in metatranscriptomic data
SortMeRNA: fast and accurate filtering of ribosomal RNAs in metatranscriptomic data
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SortMeRNA: fast and accurate filtering of ribosomal RNAs in metatranscriptomic data

Bioinformatics, 2012-12, Vol.28 (24), p.3211-3217 [Peer Reviewed Journal]

2014 INIST-CNRS ;Distributed under a Creative Commons Attribution 4.0 International License ;ISSN: 1367-4803 ;EISSN: 1367-4811 ;EISSN: 1460-2059 ;DOI: 10.1093/bioinformatics/bts611 ;PMID: 23071270

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8
SINA: Accurate high-throughput multiple sequence alignment of ribosomal RNA genes
SINA: Accurate high-throughput multiple sequence alignment of ribosomal RNA genes
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SINA: Accurate high-throughput multiple sequence alignment of ribosomal RNA genes

Bioinformatics, 2012-07, Vol.28 (14), p.1823-1829 [Peer Reviewed Journal]

2015 INIST-CNRS ;The Author(s) 2012. Published by Oxford University Press. 2012 ;ISSN: 1367-4803 ;EISSN: 1367-4811 ;EISSN: 1460-2059 ;DOI: 10.1093/bioinformatics/bts252 ;PMID: 22556368

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9
A high-performance computing toolset for relatedness and principal component analysis of SNP data
A high-performance computing toolset for relatedness and principal component analysis of SNP data
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A high-performance computing toolset for relatedness and principal component analysis of SNP data

Bioinformatics, 2012-12, Vol.28 (24), p.3326-3328 [Peer Reviewed Journal]

2014 INIST-CNRS ;The Author 2012. Published by Oxford University Press. All rights reserved. For Permissions, please e-mail: journals.permissions@oup.com 2012 ;ISSN: 1367-4803 ;EISSN: 1367-4811 ;EISSN: 1460-2059 ;DOI: 10.1093/bioinformatics/bts606 ;PMID: 23060615

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10
Power and sample-size estimation for microbiome studies using pairwise distances and PERMANOVA
Power and sample-size estimation for microbiome studies using pairwise distances and PERMANOVA
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Power and sample-size estimation for microbiome studies using pairwise distances and PERMANOVA

Bioinformatics, 2015-08, Vol.31 (15), p.2461-2468 [Peer Reviewed Journal]

The Author 2015. Published by Oxford University Press. All rights reserved. For Permissions, please e-mail: journals.permissions@oup.com. ;The Author 2015. Published by Oxford University Press. All rights reserved. For Permissions, please e-mail: journals.permissions@oup.com 2015 ;ISSN: 1367-4803 ;EISSN: 1367-4811 ;EISSN: 1460-2059 ;DOI: 10.1093/bioinformatics/btv183 ;PMID: 25819674

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11
FLASH: fast length adjustment of short reads to improve genome assemblies
FLASH: fast length adjustment of short reads to improve genome assemblies
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FLASH: fast length adjustment of short reads to improve genome assemblies

Bioinformatics, 2011-11, Vol.27 (21), p.2957-2963 [Peer Reviewed Journal]

The Author 2011. Published by Oxford University Press. All rights reserved. For Permissions, please email: journals.permissions@oup.com 2011 ;2015 INIST-CNRS ;ISSN: 1367-4803 ;EISSN: 1460-2059 ;EISSN: 1367-4811 ;DOI: 10.1093/bioinformatics/btr507 ;PMID: 21903629

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12
The sva package for removing batch effects and other unwanted variation in high-throughput experiments
The sva package for removing batch effects and other unwanted variation in high-throughput experiments
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The sva package for removing batch effects and other unwanted variation in high-throughput experiments

Bioinformatics (Oxford, England), 2012-03, Vol.28 (6), p.882-883 [Peer Reviewed Journal]

2015 INIST-CNRS ;The Author 2012. Published by Oxford University Press. All rights reserved. For Permissions, please email: journals.permissions@oup.com 2012 ;ISSN: 1367-4803 ;EISSN: 1367-4811 ;DOI: 10.1093/bioinformatics/bts034 ;PMID: 22257669

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13
UCHIME improves sensitivity and speed of chimera detection
UCHIME improves sensitivity and speed of chimera detection
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UCHIME improves sensitivity and speed of chimera detection

Bioinformatics, 2011-08, Vol.27 (16), p.2194-2200 [Peer Reviewed Journal]

The Author(s) 2011. Published by Oxford University Press. 2011 ;2015 INIST-CNRS ;ISSN: 1367-4803 ;EISSN: 1460-2059 ;EISSN: 1367-4811 ;DOI: 10.1093/bioinformatics/btr381 ;PMID: 21700674

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14
GAPIT: genome association and prediction integrated tool
GAPIT: genome association and prediction integrated tool
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GAPIT: genome association and prediction integrated tool

Bioinformatics, 2012-09, Vol.28 (18), p.2397-2399 [Peer Reviewed Journal]

2015 INIST-CNRS ;ISSN: 1367-4803 ;EISSN: 1367-4811 ;EISSN: 1460-2059 ;DOI: 10.1093/bioinformatics/bts444 ;PMID: 22796960

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15
The variant call format and VCFtools
The variant call format and VCFtools
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The variant call format and VCFtools

Bioinformatics, 2011-08, Vol.27 (15), p.2156-2158 [Peer Reviewed Journal]

The Author(s) 2011. Published by Oxford University Press. 2011 ;2015 INIST-CNRS ;ISSN: 1367-4803 ;EISSN: 1460-2059 ;EISSN: 1367-4811 ;DOI: 10.1093/bioinformatics/btr330 ;PMID: 21653522

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16
A statistical framework for SNP calling, mutation discovery, association mapping and population genetical parameter estimation from sequencing data
A statistical framework for SNP calling, mutation discovery, association mapping and population genetical parameter estimation from sequencing data
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A statistical framework for SNP calling, mutation discovery, association mapping and population genetical parameter estimation from sequencing data

Bioinformatics, 2011-11, Vol.27 (21), p.2987-2993 [Peer Reviewed Journal]

The Author 2011. Published by Oxford University Press. All rights reserved. For Permissions, please email: journals.permissions@oup.com 2011 ;2015 INIST-CNRS ;ISSN: 1367-4803 ;EISSN: 1460-2059 ;EISSN: 1367-4811 ;DOI: 10.1093/bioinformatics/btr509 ;PMID: 21903627

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17
MissForest-non-parametric missing value imputation for mixed-type data
MissForest-non-parametric missing value imputation for mixed-type data
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MissForest-non-parametric missing value imputation for mixed-type data

Bioinformatics, 2012-01, Vol.28 (1), p.112-118 [Peer Reviewed Journal]

The Author 2011. Published by Oxford University Press. All rights reserved. For Permissions, please email: journals.permissions@oup.com 2011 ;2015 INIST-CNRS ;ISSN: 1367-4803 ;EISSN: 1460-2059 ;EISSN: 1367-4811 ;DOI: 10.1093/bioinformatics/btr597 ;PMID: 22039212

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18
RSeQC: quality control of RNA-seq experiments
RSeQC: quality control of RNA-seq experiments
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RSeQC: quality control of RNA-seq experiments

Bioinformatics, 2012-08, Vol.28 (16), p.2184-2185 [Peer Reviewed Journal]

2015 INIST-CNRS ;ISSN: 1367-4803 ;EISSN: 1367-4811 ;EISSN: 1460-2059 ;DOI: 10.1093/bioinformatics/bts356 ;PMID: 22743226

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19
ConsensusClusterPlus: a class discovery tool with confidence assessments and item tracking
ConsensusClusterPlus: a class discovery tool with confidence assessments and item tracking
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ConsensusClusterPlus: a class discovery tool with confidence assessments and item tracking

Bioinformatics, 2010-06, Vol.26 (12), p.1572-1573 [Peer Reviewed Journal]

2015 INIST-CNRS ;The Author 2010. Published by Oxford University Press. 2010 ;ISSN: 1367-4803 ;EISSN: 1460-2059 ;EISSN: 1367-4811 ;DOI: 10.1093/bioinformatics/btq170 ;PMID: 20427518

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20
Snakemake—a scalable bioinformatics workflow engine
Snakemake—a scalable bioinformatics workflow engine
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Snakemake—a scalable bioinformatics workflow engine

Bioinformatics (Oxford, England), 2012-10, Vol.28 (19), p.2520-2522 [Peer Reviewed Journal]

2015 INIST-CNRS ;ISSN: 1367-4803 ;EISSN: 1367-4811 ;DOI: 10.1093/bioinformatics/bts480 ;PMID: 22908215

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