Pinned Repositories
anvio
An analysis and visualization platform for 'omics data
bamm
A program for multimodel inference on speciation and trait evolution
BamM-1
Metagenomics-focused BAM file manipulation
blobtools
Modular command-line solution for visualisation, quality control and taxonomic partitioning of genome datasets
BRAKER
BRAKER is a pipeline for fully automated prediction of protein coding gene structures with GeneMark-ES/ET and AUGUSTUS in novel eukaryotic genomes
Chiron
A basecaller for Oxford Nanopore Technologies' sequencers
dnaPipeTE
dnaPipeTE (for de-novo assembly & annotation Pipeline for Transposable Elements), is a pipeline designed to find, annotate and quantify Transposable Elements in small samples of NGS datasets. It is very useful to quantify the proportion of TEs in newly sequenced genomes since it does not require genome assembly and works on small datasets (< 1X).
figtree
Automatically exported from code.google.com/p/figtree
genomethreader
GenomeThreader gene prediction software.
PhyLTR
Phylogenetic Analysis of Long Terminal Repeat Retrotransposons
shiyi-pan's Repositories
shiyi-pan/PhyLTR
Phylogenetic Analysis of Long Terminal Repeat Retrotransposons
shiyi-pan/anvio
An analysis and visualization platform for 'omics data
shiyi-pan/bamm
A program for multimodel inference on speciation and trait evolution
shiyi-pan/BamM-1
Metagenomics-focused BAM file manipulation
shiyi-pan/blobtools
Modular command-line solution for visualisation, quality control and taxonomic partitioning of genome datasets
shiyi-pan/BRAKER
BRAKER is a pipeline for fully automated prediction of protein coding gene structures with GeneMark-ES/ET and AUGUSTUS in novel eukaryotic genomes
shiyi-pan/Chiron
A basecaller for Oxford Nanopore Technologies' sequencers
shiyi-pan/dnaPipeTE
dnaPipeTE (for de-novo assembly & annotation Pipeline for Transposable Elements), is a pipeline designed to find, annotate and quantify Transposable Elements in small samples of NGS datasets. It is very useful to quantify the proportion of TEs in newly sequenced genomes since it does not require genome assembly and works on small datasets (< 1X).
shiyi-pan/figtree
Automatically exported from code.google.com/p/figtree
shiyi-pan/genomethreader
GenomeThreader gene prediction software.
shiyi-pan/genomicscourse
For QMUL's Genome Bioinformatics MSc module BIO721P & SIB's Spring school in bioinfo & population genomics
shiyi-pan/Glimmer-MG
Gene prediction in metagenomic sequences using Glimmer augmented by phylogenetic classification and clustering
shiyi-pan/hello-algorithm
🙈🙉🙊 本项目包括：1、我写的三十万字图解算法题典 2、100 张 IT 相关超清思维导图 3、100 篇大厂面经汇总 4、各语言编程电子书 100 本 5、English version supported !!! 🚀🚀 国人项目上榜首不易，右上角助力一波！干就对了，奥利给 ！🚀🚀
shiyi-pan/HGTector
HGTector2: Genome-wide prediction of horizontal gene transfer based on distribution of sequence homology patterns.
shiyi-pan/L1_Project
shiyi-pan/NoiseCancellingRepeatFinder
Noise-Cancelling Repeat Finder
shiyi-pan/pimsa
Automatically exported from code.google.com/p/pimsa
shiyi-pan/positive-selection
Scripts and procedures for detecting positively selected genes and codons in primates
shiyi-pan/redundans
Redundans is a pipeline that assists an assembly of heterozygous/polymorphic genomes.
shiyi-pan/rnaseq_tutorial
Informatics for RNA-seq: A web resource for analysis on the cloud. Educational tutorials and working pipelines for RNA-seq analysis including an introduction to: cloud computing, critical file formats, reference genomes, gene annotation, expression, differential expression, alternative splicing, data visualization, and interpretation.
shiyi-pan/spaln
Genome mapping and spliced alignment of cDNA or amino acid sequences
shiyi-pan/Stock-Market-Prediction-using-Neural-Networks-and-Genetic-Algorithm
Matlab Module for Stock Market Prediction using Simple NN
shiyi-pan/Teaching-Comp-Genomics-Vis
Comparative Genomics and Visualisation teaching module
shiyi-pan/tephra
Apache Tephra: Transactions for HBase.
shiyi-pan/tracer
Posterior summarisation in Bayesian phylogenetics
shiyi-pan/tutorials
Tutorials on evolutionary genomics