Search results

Bioinformatics (Oxford, England) 2012;28;4;464-9 PUBMED: 22199388; PMC: 3278759; DOI: 10.1093/bioinformatics/btr703

...vestad L (2012) "Improved gap size estimation for scaffolding algorithms." Bioinformatics 28(17), 2215-2222] ...(2014) "BESST--efficient scaffolding of large fragmented assemblies." BMC Bioinformatics 15, 281]

...informatics, CSV/TSV formats are basic and ubiquitous file formats in both Bioinformatics and data science.

...gnment for nucleotide sequences. Bioinformatics, 34:3094-3100. doi:10.1093/bioinformatics/bty191

...QC is a tool to create a single report with interactive plots for multiple bioinformatics analyses across many samples. ...single report Philip Ewels, Måns Magnusson, Sverker Lundin and Max Käller Bioinformatics (2016)]

...Singer, Knut Reinert; Bioinformatics 2014 30 (17): i349-i355; doi: 10.1093/bioinformatics/btu439

...ree Processing in the UNIX Shell. ''Thomas Junier and Evgeny M. Zdobnov''. Bioinformatics 2010 26:1669-1670 [http://bioinformatics.oxfordjournals.org/content/26/13/1669.full http://bioinformatics.oxfordjournals.org/content/26/13/1669.full]

|{{#vardefine:url|http://www.bioinformatics.babraham.ac.uk/projects/download.html#bismark}} Bisulfite-Seq applications. Bioinformatics. 2011 Jun 1;27(11):1571-2. doi:

A. Dobin et al, Bioinformatics 2012; doi: 10.1093/bioinformatics/bts635 "STAR: ultrafast universal RNA-seq aligner"

...ncient DNA damage parameters. Bioinformatics 23rd April 2013. doi: 10.1093/bioinformatics/btt193]

...omal RNAs in metatranscriptomic data", Bioinformatics (2012), doi: 10.1093/bioinformatics/bts611.]

...enomic 16S rRNA data Bioinformatics (2015) 31 (17): 2882-2884. doi:10.1093/bioinformatics/btv287.]

...rom high-throughput sequencing data." Bioinformatics, January. doi:10.1093/bioinformatics/btab015.

...013) 29 (21): 2790-2791 first published online August 23, 2013 doi:10.1093/bioinformatics/btt468]

Bioinformatics. 2005 May 15;21(10):2240-5. doi: 10.1093/bioinformatics/bti336. Epub 2005 Feb 22.

...(2001). MELTING, computing the melting temperature of nucleic acid duplex. Bioinformatics, 17: 1226-1227. ...lexible platform to predict the melting temperatures of nucleic acids. BMC Bioinformatics, 13: 101.

...n Bousquet, Joerg Bohlmann, Inanc Birol. 2019. Bioinformatics. doi:10.1093/bioinformatics/btz400]

...on of genome-associated data with BioPerl and SVG. Bioinformatics, 10.1093/bioinformatics/btu505.]

Bioinformatics. 2015 Jul 15;31(14):2374-6. doi: 10.1093/bioinformatics/btv120. Epub 2015 Feb 28.

...ker; Susan Branford; Andreas W. Schreiber Bioinformatics 2016 doi: 10.1093/bioinformatics/btw239]

...apping based on bulked segregant analysis by deep sequencing" published in Bioinformatics. ...hod for QTL mapping based on bulked segregant analysis by deep sequencing. Bioinformatics, 2019.]

...on. Bioinformatics (2012) 28(19): 2417-2424. Epub 2012 Jul 24. doi:10.1093/bioinformatics.

...RNA-seq experiments Bioinformatics (2012) 28 (16): 2184-2185. doi: 10.1093/bioinformatics/bts356 pubmed]

...A. et al. The MaSuRCA genome Assembler. Bioinformatics (2013). doi:10.1093/bioinformatics/btt476

...ersatile and scalable detection of copy number variants in the journal OUP Bioinformatics] ...btx618 The Canvas Small Pedigree Workflow was published in the journal OUP Bioinformatics: Canvas SPW: calling de novo copy number variants in pedigrees]

* Composition-based score adjustments as in Bioinformatics 21:902-911 ...) PLAST: parallel local alignment search tool for database comparison. BMC Bioinformatics, vol 10, no 329.

Bioinformatics 31: 2877-2878 doi: 10.1093/bioinformatics/btv271.

Bioinformatics, 2010 Publication : Bioinformatics

...lizing Distances in Cross-linking Experiments. Bioinformatics, doi:10.1093/bioinformatics/btr348.

...sequence alignment of viral genomes." Bioinformatics. btaa743. doi:10.1093/bioinformatics/btaa743]

Bioinformatics Toolbox Version 4.3 (R2013a)

...bling loci across divergent taxa from next-generation sequencing data. BMC Bioinformatics 16:98 DOI 10.1186/s12859-015-0515-2}} <!--CITATION--> ...bling loci across divergent taxa from next-generation sequencing data. BMC Bioinformatics 16:98 DOI 10.1186/s12859-015-0515-2]

...nomics assembly via succinct de Bruijn graph. Bioinformatics, doi: 10.1093/bioinformatics/btv033]

...in print, online at [http://doi:10.1093/bioinformatics/btu638 doi:10.1093/bioinformatics/btu638].

...ariate genomic data sets. Bioinformatics. 2020 Aug 3:btaa692. doi: 10.1093/bioinformatics/btaa692. Epub ahead of print. PMID: 32745185.

...tp://bioinformatics.oxfordjournals.org/cgi/content/full/btu462 doi:10.1093/bioinformatics/btu462].

Clann has been published in Bioinformatics in 2005 under the following title: ...Clann: investigating phylogenetic information through supertree analyses. Bioinformatics 21(3): 390-2.

...app for fast, interactive sequence searches. Bioinformatics, doi: 10.1093/bioinformatics/bty1057 (2019).]

...ed SCRATCH suite of predictors developed by the Institute for Genomics and Bioinformatics (IGB) of the University of California, Irvine (UCI). Bioinformatics, vol 30 (18), 2592-2597

...es in terms of similarities to known protein families challenges classical bioinformatics. The ultrafast protein classification (UProC) toolbox implements a novel al ...Peter. '''UProC: tools for ultra-fast protein domain classification'''. ''Bioinformatics'', 2014

...ing biases in next generation sequencing data." Bioinformatics doi:10.1093/bioinformatics/btq614 [PMID: 21088025]

Bioinformatics 2005 21:1859-1875 Bioinformatics 2010 26:873-881

@article{10.1093/bioinformatics/btaa441, journal = {Bioinformatics},

...generation sequencing data.Fumagalli M, Vieira FG, Linderoth T, Nielsen R. Bioinformatics. 2014 May 15;30(10):1486-7 ...t Generation Sequencing Data. Korneliussen T, Albrechtsen A, Nielsen R BMC Bioinformatics. 2014 Nov 25;15(1):356

...Usadel. 2014. Trimmomatic: A flexible trimmer for Illumina Sequence Data. Bioinformatics, btu170. ...ck-free approach for efficient parallel counting of occurrences of k-mers. Bioinformatics, 27:764-770.

Bioinformatics pipeline for discovery of genetic variants from NGS reads.

The StaPH-B ToolKit is a Python library of commonly used bioinformatics tools that help to inform public health action.

Hyb is a bioinformatics pipeline for analysis of CLASH (crosslinking, ligation and sequencing of hy

SMRT® Analysis is PacBio's bioinformatics software suite for analyzing single molecule, real-time DNA sequencing data

Krona Tools is a set of scripts to create Krona charts from several Bioinformatics tools as well as from text and XML files.

...ral.com/articles/10.1186/s12859-017-1529-8 Orthograph was published in BMC Bioinformatics (2017).]

The HALC paper is accepted for publication in BMC Bioinformatics!

FLEA is a bioinformatics pipeline for analyzing longitudinal sequencing data from the Pacific Biosci

Hadfield et al., Nextstrain: real-time tracking of pathogen evolution , Bioinformatics (2018)

...sensus spliced alignment of multiple ESTs matching the same genomic locus. Bioinformatics 20, 1157-1169.

...ume 34, Issue 15, 01 August 2018, Pages 2666–2669, https://doi.org/10.1093/bioinformatics/bty149

Collection of Python libraries to parse bioinformatics files, or perform computation related to assembly, annotation, and comparat

The GenomeTools genome analysis system is a free collection of bioinformatics tools (in the realm of genome informatics) combined into a single binary na

...009.pdf Salvador Capella-Gutierrez; Jose M. Silla-Martinez; Toni Gabaldon. Bioinformatics 2009 25: 1972-1973.]

McLaren et. al. (doi:10.1093/bioinformatics/btq330)

...command line tools for the analysis of ancient whole genome duplications. Bioinformatics., bty915]

Bioinformatics (2019) https://doi.org/10.1093/bioinformatics/btz795

A bioinformatics tool to PRe-process and show INformation of SEQuence data. The tool is writ

...n multiple genomes, Bioinformatics, 2022; btac196, https://doi.org/10.1093/bioinformatics/btac196

...s/article/35/3/407/5055406 Dynamic compression schemes for graph coloring, Bioinformatics, 2018 by Harun Mustafa, Ingo Schilken, Mikhail Karasikov, Carsten Eickhoff,

|{{#vardefine:url|https://github.com/LANL-Bioinformatics/FaQCs}} ...Sequencing Data with FaQCs. [https://pubmed.ncbi.nlm.nih.gov/25408143/ BMC Bioinformatics. 2014 Nov 19;15]

...R. Abecasis and Hyun Min Kang. Unified Representation of Genetic Variants. Bioinformatics (2015) 31(13): 2202-2204]

...ge for analyzing and reconstructing reticulate evolutionary histories, BMC Bioinformatics 9:322.

...o R. DeepSig: deep learning improves signal peptide detection in proteins, Bioinformatics (2018) 34(10): 1690-1696.

...l, Jared, et al. "NxTrim: optimized trimming of Illumina mate pair reads." Bioinformatics 31.12 (2015): 2035-2037.]

...ngr, HarvestTools can also be used for generic conversion between standard bioinformatics file formats.

[[Category:Software]][[Category:Bioinformatics]]

...e 35, Issue 22, 15 November 2019, Pages 4537–4542, https://doi.org/10.1093/bioinformatics/btz265

...Tiara: deep learning-based classification system for eukaryotic sequences, Bioinformatics, Volume 38, Issue 2, 15 January 2022, Pages 344–350]

|{{#vardefine:url|http://www.bioinformatics.org/spower}} ...nalysis and sample size estimation for sequence-based association studies. Bioinformatics. (2014)]

...abstract graphs and networks. It has important applications in networking, bioinformatics, software engineering, database and web design, machine learning, and in v

C-WAP is a bash-based bioinformatics pipeline for the analysis of either long-read (ONT or PacBio) or short-read

...t, M., Danek, A. (2019) Kmer-db: instant evolutionary distance estimation, Bioinformatics, 35(1): 133–136]

...ng, Dustin E. Schones, Chen Zeng, Kairong Cui, Keji Zhao, and Weiqun Peng, Bioinformatics 25, 1952 - 1958 (2009)]

...T. Holder. 2010. "DendroPy: A Python library for phylogenetic computing". Bioinformatics 26: 1569-1571. (for all SATé versions from this website) ...of the 15th ISCB Conference on Intelligent Systems for Molecular Biology, Bioinformatics'' '''23''', i559-i568, 2007. And see http://opal.cs.arizona.edu/

Pond SLK, Frost SDW, Muse SV: HyPhy: hypothesis testing using phylogenies. Bioinformatics 2005, 21:676-679.

nubeam-dedup is a fast and easy-to-use bioinformatics tool removing exact PCR duplicates for sequencing reads, single-end or pair [https://academic.oup.com/bioinformatics/article-abstract/36/10/3254/5753947?redirectedFrom=fulltext Hang Dai and Yo

...e and robust circRNA detection from RNA-seq with CirComPara2, Briefings in Bioinformatics, 2021;, bbab418, https://doi.org/10.1093/bib/bbab418

...prehensive Tool for Rare Variant Association Analysis Using Sequence Data. Bioinformatics 2016 32: 1423-1426.]

...ntersection and visualization of multiple gene or genomic region sets. BMC Bioinformatics. 2017;18:287. doi: 10.1186/s12859-017-1708-7]

BMC Bioinformatics 2010, 11:601

...ntral.com/articles/10.1186/1471-2105-12-116 Miele V, Penel S, Duret L. BMC Bioinformatics. 2011 Apr 22;12:116. doi: 10.1186/1471-2105-12-116.]

...precise alignment of raw reads against redundant databases with KMA", BMC Bioinformatics, 2018;19:307.

Pseudofinder is a bioinformatics tool that detects pseudogene candidates from annotated genbank files of bac

...nformation into de Bruijn graphs Turner I, Garimella K, Iqbal Z, McVean G (Bioinformatics) (Advanced access 15 March 2018)]

...388 Hadfield et al., Nextstrain: real-time tracking of pathogen evolution, Bioinformatics (2018)]

...tility: a phyloinformatics tool for trees, alignments, and molecular data. Bioinformatics. 24: 715-716

|{{#vardefine:url|http://manuals.bioinformatics.ucr.edu/home/branch}} ...matics: [http://bioinformatics.oxfordjournals.org/content/early/2013/03/14/bioinformatics.btt127.abstract epub].

...zberg SL. Mugsy: Fast multiple alignment of closely related whole genomes. Bioinformatics 2011 27(3):334-4]

...kage for de novo assembly of Roche-454/Sanger transcriptome sequences. BMC Bioinformatics 12:453]

...notation of viral genomes, Bioinformatics, bty851, https://doi.org/10.1093/bioinformatics/bty851]

...and Edwards R: Quality control and preprocessing of metagenomic datasets. Bioinformatics 2011, 27:863-864.]

...biomedcentral.com/articles/10.1186/s12859-017-1939-7 Farrer RA (2017), BMC Bioinformatics 18:507]

journal={Bioinformatics},

...free to read and cite our paper in Bioinformatics: https://doi.org/10.1093/bioinformatics/btaa1034

Bioinformatics Institute (EMBL-EBI), now at UC Santa Cruz).

...FJ, Nattestad, M, Underwood, CJ, Fang, H, Gurtowski, J, Schatz, MC (2017) Bioinformatics doi]

...ing. Bioinformatics. 2019 Jul 15;35(14):2489-2491. https://doi.org/10.1093/bioinformatics/bty1007

|{{#vardefine:url|http://bioinformatics.oxfordjournals.org/content/24/21/2491.short}} ...me 24, Issue 21, 1 November 2008, Pages 2491–2497, https://doi.org/10.1093/bioinformatics/btn482

Xi Y, Li W: BSMAP: whole genome Bisulfite Sequence MAPping program. BMC Bioinformatics (2009) 10:232.

...M (2010) Robust relationship inference in genome-wide association studies. Bioinformatics 26(22):2867-2873

...ogram to detect tRNA genes in metazoan mitochondrial nucleotide sequences. Bioinformatics, 24(2), 172-175.

for multiple sequence alignments. NAR Genomics and Bioinformatics 2 (2), lqaa024.

...arkhill (2015), "Roary: Rapid large-scale prokaryote pan genome analysis", Bioinformatics]

Seemann T. Prokka: rapid prokaryotic genome annotation. Bioinformatics. 2014 Jul 15;30(14):2068-9. PMID:24642063

...h-quality genome assembly correction and scaffolding using long reads. BMC Bioinformatics 22, 534 (2021). https://doi.org/10.1186/s12859-021-04451-7

...avenier, D. and Chikhi, R. DSK: k-mer counting with very low memory usage, Bioinformatics, 2013.]

...ides dbxref-rich and sORF-including annotations in machine-readable JSON & bioinformatics standard file formats for automatic downstream analysis.

...17). ImageJ2: ImageJ for the next generation of scientific image data. BMC Bioinformatics, 18(1). doi:10.1186/s12859-017-1934-z

...nkPep: Combining Folding and Docking to Predict Protein-Peptide Complexes. Bioinformatics 2019.]

Asian Pacific Bioinformatics Conference, APCB2006.

...lity control report for variant evaluation. Yan MY, Ferguson B, Bimber BN. Bioinformatics. 2019 Dec 15;35(24):5370-5371. PMID: 31309221

...general purpose program for assigning sequence reads to genomic features. Bioinformatics, 30(7):923-30]

...lable sql-oriented solution for processing and querying genomic intervals. Bioinformatics, 2018.]

...Alignment using Graph Clustering. Bioinformatics. https://doi.org/10.1093/bioinformatics/btaa992

Many of the bioinformatics tools available on our system whether they are used on the command-line via

...Morris AP: GWAMA: software for genome-wide association meta-analysis. BMC Bioinformatics 2010, 11:288.]

A basic task in bioinformatics is the counting of k-mers in genome strings. The k-mer counting problem is

...chard D. Morgan, Geoffrey G. Wilson, Ralf Koebnik and Jens Boch. AnnoTALE: bioinformatics tools for identification, annotation, and nomenclature of TALEs from Xantho

...rticle/36/17/4658/5861530 César Piñeiro, José M. Abuín and Juan C. Pichel. Bioinformatics, vol. 36, no. 17, pages 4658-4659, 2020.]

...Volume 27, Issue 15, August 2011, Pages 2141–2143, https://doi.org/10.1093/bioinformatics/btr342

...d precise alignment of raw reads against redundant databases with KMA. BMC bioinformatics. 2018 Dec;19(1):307.]

Crossmapper is an automated bioinformatics pipeline for asessing the rate of read crossmapping when two or more organi [https://academic.oup.com/bioinformatics/article/36/3/925/5544929?login=true CROSSMAPPER: estimating cross-mapping r

...u publish research that uses {{#var:app}} you can cite Quick et al. (2018) Bioinformatics.

parsimony analysis", BMC Bioinformatics 2010, 11:574.

...bisulfite DNA methylation data analysis with Indel-sensitive mapping. BMC Bioinformatics 2019, 20:47.](https://bmcbioinformatics.biomedcentral.com/articles/10.1186/

.... Phylogenomic analysis of bacterial and archaeal sequences with AMPHORA2. Bioinformatics 2012; 28(7):1033-1034]

[http://bioinformatics.oxfordjournals.org/cgi/content/full/23/14/1801 Bioinformatics 23: 1801-1806 (2007)]

...los and Agostinho Antunes LMAP: Lightweight Multigene Analyses in PAML BMC Bioinformatics (2016), 17:354. DOI]

...Genome-wide synteny through highly sensitive sequence alignment: Satsuma. Bioinformatics, 26(9), 1145-51.]

...Map: a versatile tool for coordinate conversion between genome assemblies. Bioinformatics (Oxford, England), btt730.]

[[Category:Software]][[Category:Bioinformatics]][[Category:Sequencing]]

...package for protein-protein interaction screens using AlphaFold-Multimer. Bioinformatics, Volume 39, Issue 1, January 2023, btac749

...VA requires only several clicks and no learning curve, it will help novice bioinformatics researchers and biologist with minimal computer skills to analyze ATAC-seq

...uchsberger C, Abecasis GR, Hinds DA. minimac2: faster genotype imputation. Bioinformatics 2014]

...istic mapping of short reads using position specific scoring matrices. BMC bioinformatics, 15(1), 100.]

...s.org/cgi/content/abstract/btt086?ijkey=Kzq9lhMayiqecq9&keytype=ref http://bioinformatics.oxfordjournals.org/cgi/content/abstract/btt086?ijkey=Kzq9lhMayiqecq9&keytyp

...identification in clinical samples using unassembled sequencing data.” BMC bioinformatics 15.1 (2014): 262.

...dvanced multi-sample quality control for high-throughput sequencing data." Bioinformatics(2015)]

...hasing small, structural, and tandem repeat variants from HiFi sequencing. Bioinformatics, btae042.]

...iltering, trimming, error removing and quality control for fastq data. BMC Bioinformatics 2017 18(Suppl 3):80]

.... fqtools: An efficient software suite for modern FASTQ file manipulation. Bioinformatics (Oxford, England).]

...define:url|http://www.baseclear.com/landingpages/basetools-a-wide-range-of-bioinformatics-solutions/sspacev12/}} ...utler D, Pirovano W. 2011. Scaffolding pre-assembled contigs using SSPACE. Bioinformatics 27:578–579.

...Michael Brudno (2013) Scarpa: Scaffolding reads with practical algorithms, Bioinformatics, 29 (2013), 428-434

...in breeding programs. Bioinformatics bty375; doi:, https://doi.org/10.1093/bioinformatics/bty375.

...phylogenetics. HybPiper is a suite of Python scripts that wrap and connect bioinformatics tools in order to extract target sequences from high-throughput DNA sequenc

The pipeline is published at BMC Bioinformatics:

...Hierarchical Format for Storing and Analyzing Multiple Genome Alignments. Bioinformatics. 2013. Advance Online Access]

...free to read and cite our paper in Bioinformatics: https://doi.org/10.1093/bioinformatics/btz041

...t: correcting assembly errors using linked reads from large molecules. BMC Bioinformatics, 19(1).]

...rneliussen et al.] ANGSD: Analysis of Next Generation Sequencing Data. BMC Bioinformatics 2014, 15:356. doi:10.1186/s12859-014-0356-4.

BioLite is a bioinformatics framework written in Python/C++ that automates the collection and reporting

.... (2008) SeqMap: Mapping Massive Amount of Oligonucleotides to the Genome, Bioinformatics, 24(20)

...SPLICE: de-novo calling alternative splicing events from RNA-seq data, BMC Bioinformatics 2012, 13(Suppl 6):S5]

...er case, we want to build a well-integrated tool chest. Please see our BMC Bioinformatics paper. VTC is still under development and we are working to improve feature

...tree / species tree reconciliation with the Bayesian concordance analysis. Bioinformatics (advance access).]

...f Unix tools (for example fasgrep, fascut, fashead and fastr) for sequence bioinformatics modeled after the Unix textutils (such as grep, cut, head, tr, etc). FAST w

...nd Population Genomics" IEEE/ACM Transactions on Computational Biology and Bioinformatics. 15(4):1231-1238.]

...ltistage k-mer spectrum based error corrector for Illumina sequence data". Bioinformatics, 2013, 29(3): 308-315]

...fold change for ranking differentially expressed genes from RNA-seq data. Bioinformatics 2012

...ng Big BWTs", In Proc. of the 18th International Workshop on Algorithms in Bioinformatics (WABI 2018).

...ul toolkit for visualization of high-throughput bisulfite sequencing data, Bioinformatics, , btx633]

...l to predict the functional effect of amino acid substitutions and indels. Bioinformatics 31(16): 2745-2747.

Accurate, scalable cohort variant calls using DeepVariant and GLnexus. Bioinformatics (2021). doi: https://doi.org/10.1093/bioinformatics/btaa1081

...conversion tool for connecting population genetics and genomics programs. Bioinformatics 28: 298-299.]

...robABEL package for genome-wide association analysis of imputed data]. BMC Bioinformatics. 2010 Mar 16;11:134. doi: 10.1186/1471-2105-11-134. PubMed PMID: 20233392;

...enced and their increasing use for phylogenetic studies have resulted in a bioinformatics bottleneck in preparing and utilising such data for phylogenetic data analy

The Biopieces are a collection of bioinformatics tools that can be pieced together in a very easy and flexible manner to per

...ada D. ProtTest 3: fast selection of best-fit models of protein evolution. Bioinformatics, 27:1164-1165, 2011

...ry, Gilean McVean, Richard Durbin and 1000 Genomes Project Analysis Group, Bioinformatics, 2011. http://dx.doi.org/10.1093/bioinformatics/btr330

...profile data. It is based on the original MZmine toolbox described in 2006 Bioinformatics publication.

...prove especially useful for emerging model organism projects with minimal bioinformatics expertise and computer resources.

..., junction and 3' arrays). This software requires no advanced knowledge of bioinformatics programs or scripting or advanced computer hardware. User friendly videos,

trimmer for Illumina Sequence Data. Bioinformatics. http://dx.doi.org/10.1093/bioinformatics/btu170.

...dx.doi.org/10.1093/bioinformatics/btl446 DOI] | [http://dx.doi.org/10.1093/bioinformatics/btl446 http] ] .../manual/library2_bib.html#Stamatakis2012 bib] | [http://dx.doi.org/10.1093/bioinformatics/bts309 DOI] | [http://www.pubmedcentral.nih.gov/articlerender.fcgi?artid=34

...e to compare phylogenetic trees.Bioinformatics, 23:1556-1558. doi: 10.1093/bioinformatics/btm135.]

...r comparing protein structures and models using distance difference tests, Bioinformatics, 2013

...s BD BAli-Phy: simultaneous Bayesian inference of alignment and phylogeny, Bioinformatics, 22:2047-2048, 2006. [PDF]

The prediction of circular RNAs is a multi-stage bioinformatics process starting with raw sequencing data and usually ending with a list of

...mann S: "Fast and sensitive mapping of bisulfite-treated sequencing data", Bioinformatics (2012) 28:1698-1704

...yers, and Gabor T Marth. ART: a next-generation sequencing read simulator, Bioinformatics (2012) 28 (4): 593-594]

...Solexa or 454, developed by Daniel Zerbino and Ewan Birney at the European Bioinformatics Institute (EMBL-EBI), near Cambridge, in the United Kingdom.

.... Aluru, “Reptile: Representative tiling for short read error correction”, Bioinformatics, 26(20), 2526-2533, 2010.

...um likelihood phylogenetic analysis using quartets and parallel computing. Bioinformatics. 18:502-504.]

...bases in both regions negatively impact assembles, mapping, and downstream bioinformatics analyses.

..., usually obtained through metagenomic studies. Previous attempts by other bioinformatics software to accomplish this task have often used sequence alignment or mach

...0.1111/2041-210X.13392 Portik, D.M., and J.J. Wiens. (2020) SuperCRUNCH: A bioinformatics toolkit for creating and manipulating supermatrices and other large phyloge

[http://busco.ezlab.org/files/BUSCO-Simao-Waterhouse-Bioinformatics-2015.pdf Bioinformatics, published online June 9, 2015]

booktitle = {21st International Workshop on Algorithms in Bioinformatics (WABI 2021)},

...ayesian and maximum likelihood inference of population genetic parameters. Bioinformatics, 22(3):341–345.

...e reproducibility of the BLAST results within the time frame of an average bioinformatics project two old database releases are kept and can be accessed by setting t

...ata exploration and analysis software for complex image-based screens. BMC Bioinformatics 9(1):482/doi: 10.1186/1471-2105-9-482. PMID: 19014601 PMCID: PMC2614436

.... Aluru, “Reptile: Representative tiling for short read error correction”, Bioinformatics, 26(20), 2526-2533, 2010.