TankMermaid
Interested in Statistics, Deep Learning & Classical Peoms
University of Chinese Academy of Sciences Beijing Chaoyang District
Pinned Repositories
chatgpt-clone
ChatGPT interface with better UI
ChIPSeqSpike
ChIP-Seq data scaling according to spike-in control
classicalBooks
Co-occurrence_Network_Analysis
R and python scripts for correlation-based network analysis
git_test
laterna
Work-a-day extensions to racket/slideshow
MicrobiomeBestPracticeReview
Current Challenges and Best Practice Protocols for Microbiome Analysis using Amplicon and Metagenomic Sequencing
sparcc
Fork of SparCC (bitbucket.org/yonatanf/sparcc) with several fixes
sparcc-2
spike-in
spike-in
TankMermaid's Repositories
TankMermaid/alignment-and-variant-calling-tutorial
basic walk-throughs for alignment and variant calling from NGS sequencing data
TankMermaid/baxter-diagnostic
TankMermaid/BiocIntro
Course material for introductory R / Bioconductor courses
TankMermaid/biom-format
The Biological Observation Matrix (BIOM) Format Project
TankMermaid/bwa
Burrow-Wheeler Aligner for pairwise alignment between DNA sequences
TankMermaid/centrifuge
Classifier for metagenomic sequences
TankMermaid/CISD
Chromatin Interaction Site Detector
TankMermaid/COPRO-Seq
Scripts and other inputs needed to perform a COPRO-Seq (COmmunity PROfiling by Sequencing) analysis.
TankMermaid/cufflinks
TankMermaid/dada2
Accurate sample inference from amplicon data with single nucleotide resolution
TankMermaid/docker-galaxy-stable
:whale::bar_chart::books: Docker Images tracking the stable Galaxy releases.
TankMermaid/ggbiplot
A biplot based on ggplot2
TankMermaid/hisat2
Graph-based alignment (Hierarchical Graph FM index)
TankMermaid/idba
TankMermaid/igraph
Library for the analysis of networks
TankMermaid/LifeCylceAnalysis
TankMermaid/lotus
Scripts related to the Lotus japonicus root microbiota manuscript Zgadzaj, Garrido-Oter et al., 2016
TankMermaid/microbiome_helper
An assortment of scripts to help process and automate various microbiome and metagenomic bioinformatic tools.
TankMermaid/monocle-release
TankMermaid/mwas
Perform microbiome-wide association studies with a variety of models
TankMermaid/pandaseq
PAired-eND Assembler for DNA sequences
TankMermaid/pbi
Microbiome analysis for phosphate-defense interaction
TankMermaid/PEAR
Pair-End AssembeR
TankMermaid/phyloseq
phyloseq is a set of classes, wrappers, and tools (in R) to make it easier to import, store, and analyze phylogenetic sequencing data; and to reproducibly share that data and analysis with others. See the phyloseq front page:
TankMermaid/qiime
qiime_project
TankMermaid/qiime-1
Official repository for QIIME 1 software, unit tests and documentation.
TankMermaid/rigraph
igraph R package
TankMermaid/swipe
Smith-Waterman database searches with inter-sequence SIMD parallelisation
TankMermaid/TwoStage
The TwoStage package implements the Hidden Markov Model based FDR control for multiple comparison adjustment under dependence.
TankMermaid/Winter.School2017
Repository for Winter School 2017- Bioinformatics for Adaptation Genomics