Pinned Repositories
analysis_of_microbiome_community_data_in_r
This is the source code for the "Analysis of Microbiome Community Data in R" ICPP 2018 workshop. The website is available at: https://grunwaldlab.github.io/analysis_of_microbiome_community_data_in_r/
AnnotationForge
This is a read-only mirror of the Bioconductor SVN repository. Package Homepage: http://bioconductor.org/packages/devel/bioc/html/AnnotationForge.html Bug Reports: https://support.bioconductor.org/p/new/post/?tag_val=AnnotationForge.
bamm
A program for multimodel inference on speciation and trait evolution
bayou
bayou-1
EcoEvoLinks
Links for Ecology and Evolution
PanDepth
PanDepth, an ultra-fast and efficient genomic tool for coverage calculation
phylotools
Phylogenetic tools for Eco-phylogenetics
Python_mtDNA
TBtools
GUI/CommandLine Tool Box for biologistists to utilize NGS data.
lzhangss's Repositories
lzhangss/PanDepth
PanDepth, an ultra-fast and efficient genomic tool for coverage calculation
lzhangss/analysis_of_microbiome_community_data_in_r
This is the source code for the "Analysis of Microbiome Community Data in R" ICPP 2018 workshop. The website is available at: https://grunwaldlab.github.io/analysis_of_microbiome_community_data_in_r/
lzhangss/BBMV
Trait evolution on phylogenies in macroevolutionary landscapes of any shape
lzhangss/Beautiful-Visualization-with-R
《R语言数据可视化之美》配套代码
lzhangss/bmr
Evolution of metabolic scaling
lzhangss/ecospat
Miscellaneous methods and utilities for spatial ecology analysis, written by current and former members and collaborators of the ecospat group of Prof. Antoine Guisan, Department of Ecology and Evolution (DEE) & Institute of Earth Surface Dynamics (IDYST), University of Lausanne, Switzerland.
lzhangss/FasParser-1
A Windows Graphical Platform for Batch Manipulation of Tremendous Amount of Sequence Data
lzhangss/figtree
Automatically exported from code.google.com/p/figtree
lzhangss/FIZ_analysis
lzhangss/GEO
lzhangss/geomorph
Geomorph is a software package for performing all stages of geometric morphometric shape analysis of landmark points and curves in 2-and-3-dimensions as well as 3D surfaces in the R statistical computing environment. This repository is dedicated to providing stable and beta versions between CRAN uploads
lzhangss/GetOrganelle
https://github.com/Kinggerm/GetOrganelle/wiki
lzhangss/l1ou
Detection of evolutionary shifts in Ornstein-Uhlenbeck models
lzhangss/linzhang.github.io
lzhangss/MCMCtreeR
MCMCtreeR: A package to estimate distribution values for temporal node constraints and prepare input files for MCMCtree
lzhangss/microbiomeMarker
R package for microbiome biomarker discovery
lzhangss/mixedmodels-misc
miscellaneous materials for mixed models, mostly in R
lzhangss/mvMORPH
mvMORPH: an R package for fitting multivariate evolutionary models to morphometric data
lzhangss/NicheMapR
R implementation of Niche Mapper software for biophysical modelling
lzhangss/phangorn
Phylogenetic analysis in R
lzhangss/PhylogeneticEM
Implementation of the EM algorithm for the detection of shifts in a phylogeny.
lzhangss/phyloglmm
lzhangss/phyr
Functions for phylogenetic analyses
lzhangss/R_bilibili
lzhangss/ratematrix
Bayesian estimation of the evolutionary rate matrix.
lzhangss/rr2
R2 for correlated data; see https://academic.oup.com/sysbio/advance-article/doi/10.1093/sysbio/syy060/5098616
lzhangss/SoundShape
Crossing the bridge between Bioacoustics and Geometric Morphometrics
lzhangss/TCGAplot
A number of functions were generated to perform pan-cancer DEG analysis, correlation analysis between gene expression and TMB, MSI, TIME, and promoter methylation. Methods for visualization were provided in order to easily perform integrative pan-cancer multi-omics analysis.
lzhangss/TetrapodLifeHistory
Project investigating life history trait evolution in tetrapods.
lzhangss/treePL
Phylogenetic penalized likelihood