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2017-cicese-metagenomics

ensembl-pipeline

Job management for the Ensembl Genebuild pipeline

goatools

Python scripts to find enrichment of GO terms

labs

Rmd source files for the HarvardX series PH525x

learn-bioinformatics

linux-command

Linux命令大全搜索工具，内容包含Linux命令手册、详解、学习、搜集。

metacrispr

metagenome_freshwater_reservoirs

Reconstruction of Diverse Verrucomicrobial Genomes from Metagenome Datasets of Freshwater Reservoirs

metagenome_panda_shen

Panda Shen's metagenome learing note notebook

metapalette

Metagenomic profiling and phylogenetic distances via common kmers

miscperlscripts

Small collection of random useful perl scripts

multi-metagenome

ncbi-genome-download

Scripts to download genomes from the NCBI FTP servers

ngs-pipeline

By study this, it won't be costly or time-consuming to customize a NGS data analysis pipeline

notebook

novo_comparison

comparative genomics of degradative Novosphingobium

oneliners

Useful bash one-liners for bioinformatics.

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:

python_biotrainee

Panda Shen's Python learning scripts

rna-seq-scripts

This is a collection of small scripts built by the Lenz lab to make RNA sequencing tasks more efficient.

rna_seq_biotrainee

DEG analysis and KEGG/GO enrichment analysis

rna_v2

A revised pipeline for RNA seq pipeline

sem_panda

Structural Equation Model

shenmengyuan.github.io

Mengyuan's blog

taxon-bin-dist-utils

taxon-bin-dist-utils: utils to associate taxonomy profiling and functional profiling

trinityrnaseq

Trinity RNA-Seq de novo transcriptome assembly

yun-gui_plateau_lake

An overview of analysis pipeline to metagenome of each lake samples at different trophic levels, including the steps of sampling, DNA Extraction, sequencing, assembly, CDS finding, CDS abundance calculating, taxonomy, functional assignment and statistical analysis