(Q33876840)

29 July 2017

1 reference

title

PhyloSim - Monte Carlo simulation of sequence evolution in the R statistical computing environment (English)

1 reference

29 July 2017

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3

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29 July 2017

4

1 reference

29 July 2017

2

Tim Massingham

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Botond Sipos

object named as

Botond Sipos

series ordinal

1

0 references

publication date

19 April 2011

1 reference

29 July 2017

1 reference

29 July 2017

12

1 reference

29 July 2017

104

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Creative Commons Attribution 2.0 Generic

29 July 2017

start time

19 April 2011

1 reference

April 2022 Public Data File from Crossref

copyright status

copyrighted

1 reference

April 2022 Public Data File from Crossref

describes a project that uses

ggplot2

object named as

ggplot2

2 references

10 June 2022

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/efetch.fcgi?db=pmc&rettype=xml&id=3102636

CZ Software Mentions: A large dataset of software mentions in the biomedical literature

exact match

https://scigraph.springernature.com/pub.10.1186/1471-2105-12-104

0 references

cites work

phangorn: phylogenetic analysis in R

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3102636

webPRANK: a phylogeny-aware multiple sequence aligner with interactive alignment browser

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3102636

INDELible: a flexible simulator of biological sequence evolution

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3102636

A model of evolution and structure for multiple sequence alignment

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3102636

''R"--project for statistical computing

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3102636

GEIGER: investigating evolutionary radiations

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3102636

DNA indels in coding regions reveal selective constraints on protein evolution in the human lineage.

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3102636

Functional constraint and small insertions and deletions in the ENCODE regions of the human genome

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3102636

PAML 4: phylogenetic analysis by maximum likelihood

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3102636

Heterotachy and long-branch attraction in phylogenetics

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3102636

SIMPROT: using an empirically determined indel distribution in simulations of protein evolution

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3102636

An algorithm for progressive multiple alignment of sequences with insertions

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3102636

APE: Analyses of Phylogenetics and Evolution in R language

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3102636

Molecular phylogenetics: state-of-the-art methods for looking into the past

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3102636

Codon-substitution models for heterogeneous selection pressure at amino acid sites

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3102636

Seq-Gen: an application for the Monte Carlo simulation of DNA sequence evolution along phylogenetic trees

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3102636

Phylogenetic methods come of age: testing hypotheses in an evolutionary context

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3102636

A codon-based model of nucleotide substitution for protein-coding DNA sequences

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3102636

A simple method for estimating evolutionary rates of base substitutions through comparative studies of nucleotide sequences

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3102636

SDSE: a software package to simulate the evolution of a pair of DNA sequences.

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3102636

An evolutionary model for maximum likelihood alignment of DNA sequences

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3102636

Uniting Alignments and Trees

5 July 2018

1 reference

https://api.crossref.org/works/10.1186%2F1471-2105-12-104

Statistical tests of models of DNA substitution.

21 January 2018

1 reference

https://api.crossref.org/works/10.1186%2F1471-2105-12-104

DNA assembly with gaps (Dawg): simulating sequence evolution.

21 January 2018

1 reference

https://api.crossref.org/works/10.1186%2F1471-2105-12-104

Single-nucleotide mutation rate increases close to insertions/deletions in eukaryotes.

21 January 2018

1 reference

https://api.crossref.org/works/10.1186%2F1471-2105-12-104

MySSP: non-stationary evolutionary sequence simulation, including indels.

21 January 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3102636

Tools for simulating evolution of aligned genomic regions with integrated parameter estimation

29 October 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3102636

Computational reconstruction of ancestral DNA sequences

29 October 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3102636

29 October 2018

Identifiers

DOI

10.1186/1471-2105-12-104

1 reference

journals/bmcbi/SiposMJG11

29 July 2017

1 reference

DBLP Dataset 2021-01-02

Dimensions Publication ID

28 January 2021

0 references

1 reference

29 July 2017

1 reference

PubMed ID

21504561