Pinned Repositories
coalescent-theory
NOT FREE SOFTWARE UNTIL AFTER MAY
convCal
Python scripts for calculation of expected number of convergence in Zou and Zhang 2015
Coursera-Bioinformatics
My solution to Bioinformatics Specialization (Finding Hidden Messages in DNA; Genome Sequencing; Comparing Genes, Proteins, and Genomes; Molecular Evolution; Genomic Data Science and Clustering; Finding Mutations in DNA and Proteins; Bioinformatics Capstone: Big Data in Biology)
GenomicPipelines
scripts writed during PHD
HMM
隐马尔科夫模型进行中文分词 python
MCMC
Collection of Monte Carlo (MC) and Markov Chain Monte Carlo (MCMC) algorithms applied on simple examples.
Positive_selection
Scripts for running codeml (from PAML package)
positiveSelectionPipeline
Random perl and shell scripts plus notes for whole genome CDS positive selection detection
prob140-textbook-zh
:book: [译] 面向数据科学的概率论
ThinkBayes
Code repository for Think Bayes.
BIGtigr's Repositories
BIGtigr/80_genomes
code for analyzing loss and gain of a gene among many genomes
BIGtigr/coalescent-theory
NOT FREE SOFTWARE UNTIL AFTER MAY
BIGtigr/finalseg
Chinese Words Segment Library based on HMM model
BIGtigr/GenomeAlign
BIGtigr/HMM
隐马尔科夫模型进行中文分词 python
BIGtigr/Scripts
BIGtigr/BioExt
A few handy bioinformatics tools not already within BioPython
BIGtigr/Bioinformatics-1
Homework 3
BIGtigr/genblastA_to_gff
BIGtigr/haemonchus-comparison
Code used for comparison of two Haemonchus contortus genomes, in my honours thesis at the University of Calgary.
BIGtigr/HeteroScan
A Tool to identify and quantify Heterozygosity in Genome
BIGtigr/HMM-and-Bayesian-HMM
Dicrete and Mixture of Gaussian HMM and Bayesian HMM(离散和混合高斯隐马尔可夫模型和贝叶斯隐马尔可夫模型)
BIGtigr/HMM-python
用python实现了隐马尔科夫模型的概率计算和预测部分,主要是前向后向算法和维特比算法
BIGtigr/kingman
An example Python package, which simulates Kingman's coalescent.
BIGtigr/MCMCPYJW
various MCMC and apadive MCMC script
BIGtigr/mle-for-nowcasting
Example of maximum likelihood estimation in Python (follows Matlab code)
BIGtigr/np-hmm
General Bayesian non-parametric hidden Markov model
BIGtigr/PAMLpipeline
Shell scripts for running batch PAML
BIGtigr/PhosCalc
The Sainsbury Lab Tool for estimating the likelihood of phosphorylation at possible sites in a peptide from Mass Spec data
BIGtigr/plinkline
Finding regions of selection with iHS and XP-EHH, a pipeline between PLINK, scripts from the Pritchard lab and beyond.
BIGtigr/Primer_Scientific_Programming
Files for A Primer on Scientific Programming with Python (4th) by H.P. Langtangen
BIGtigr/python-biplot
Generates simple biplot using common scientific Python packages
BIGtigr/PythonHMM
A toy Python implementation of the Hidden Markov Model.
BIGtigr/reciprocal_smallest_distance
Reciprocal Smallest Distance (RSD) is a pairwise orthology algorithm that uses global sequence alignment and maximum likelihood evolutionary distance between sequences to accurately detects orthologs between genomes.
BIGtigr/Silva2014_RustPhylogenomics
The set of scripts used in Silva et al. 2014 "Genomic patterns of positive selection at the origin of rust fungi"
BIGtigr/Speech_Recognition
A simple speech recognition using HMM (python)
BIGtigr/SWAMP
Sliding Window Alignment Masker for PAML
BIGtigr/Traveling-Salesman-MCMC-approach
Markov Chain Monte Carlo (MCMC) practice
BIGtigr/xgcode
A server for a collection of web-accessible python scripts.