Ecosyste.ms: Papers

An open API service providing mapping between scientific papers and software projects that are mentioned in them.
All mentions data is based on the CZI Software Mentions dataset.

Papers: 10.1371/journal.pone.0243927

https://doi.org/10.1371/journal.pone.0243927

A workflow with R: Phylogenetic analyses and visualizations using mitochondrial cytochrome b gene sequences

Cited by: 13
Author(s): Emine Toparslan, Kemal Karabağ, Uğur Bilge
Published: almost 4 years ago

Software Mentions 24

bioconductor: Biostrings
Efficient manipulation of biological strings
Papers that mentioned: 220
bioconductor: ggtree
an R package for visualization of tree and annotation data
Papers that mentioned: 474
bioconductor: msa
Multiple Sequence Alignment
Papers that mentioned: 50
bioconductor: treeio
Base Classes and Functions for Phylogenetic Tree Input and Output
Papers that mentioned: 32
cran: adegenet
Exploratory Analysis of Genetic and Genomic Data
Papers that mentioned: 767
cran: ape
Analyses of Phylogenetics and Evolution
Papers that mentioned: 918
cran: bio3d
Biological Structure Analysis
Papers that mentioned: 27
cran: bios2mds
From Biological Sequences to Multidimensional Scaling
Papers that mentioned: 8
cran: fasta
Fast Adaptive Shrinkage/Thresholding Algorithm
Papers that mentioned: 848
cran: ggplot2
Create Elegant Data Visualisations Using the Grammar of Graphics
Papers that mentioned: 11,441
cran: ips
Interfaces to Phylogenetic Software in R
Papers that mentioned: 10
cran: knitr
A General-Purpose Package for Dynamic Report Generation in R
Papers that mentioned: 157
cran: pegas
Population and Evolutionary Genetics Analysis System
Papers that mentioned: 117
cran: rmarkdown
Dynamic Documents for R
Papers that mentioned: 38
pypi: ape
A Productive Environment - make/rake/ant/fab-like system with support for FOSD
Papers that mentioned: 918
pypi: fas
FaaSpot Client
Papers that mentioned: 1
pypi: fasta
The fasta python package enables you to deal with biological sequence files easily.
Papers that mentioned: 848
pypi: fastaq
fastAQ is a very and super lightweight package for working with FASTA/FASTQ sequences
Papers that mentioned: 15
pypi: ips
UNKNOWN
Papers that mentioned: 10
pypi: msa
Maven settings administrator
Papers that mentioned: 50
pypi: PACE
Data Quality of Experimental Data
Papers that mentioned: 13,779
pypi: packages

Papers that mentioned: 29
pypi: stats
Calculator-style statistical functions
Papers that mentioned: 3,105
pypi: treeio
A pure python parser for tree data format IO
Papers that mentioned: 32