Pinned Repositories
amplicon
Statistics and visualization for amplicon data
bcbb
Incubator for useful bioinformatics code, primarily in Python and R
Community-assembly-processes-and-species-coexistences-of-agricultural-soils-microbiome
Methanoliparum_MS_code
OWC_metaT_analysis2019
metaT_analysis of the OWC wetland dataset, 2019, mapping, quantification,
SgVG_supraglacial_virome
scripts for the GGV projects
Tools-Microbiome-Analysis
A list of R environment based tools for microbiome data exploration, statistical analysis and visualization
virus_in_metagenome
log of virus-phage analysis in metagenomes contigs, collaboration with Josue
liupfskygre's Repositories
liupfskygre/bacphlip
A python library for predicting phage lifestyle based on genome sequence
liupfskygre/spacepharer
SpacePHARER CRISPR Spacer Phage-Host pAiRs findER
liupfskygre/TBP_wechat_log
liupfskygre/inStrain
Bioinformatics program inStrain
liupfskygre/SCycDB
liupfskygre/VirSorter2
customizable pipeline to identify viral sequences from (meta)genomic data
liupfskygre/csvtk
A cross-platform, efficient and practical CSV/TSV toolkit in Golang
liupfskygre/public_db_file_transfer
liupfskygre/Methanoliparum_MS_code
liupfskygre/snap
Scalable Nucleotide Alignment Program -- a fast and accurate read aligner for high-throughput sequencing data
liupfskygre/frap
liupfskygre/MetaSanity
Pipeline for major biological analyses.
liupfskygre/SpatioTemporalViromes
liupfskygre/bowtie2
A fast and sensitive gapped read aligner
liupfskygre/MicrobeAnnotator
Pipeline for metabolic annotation of microbial genomes
liupfskygre/ggtree
:christmas_tree:Visualization and annotation of phylogenetic trees
liupfskygre/DeepVirFinder
Identifying viruses from metagenomic data by deep learning
liupfskygre/seeker
liupfskygre/EasyMetagenome
Easy Metagenome Pipeline 2019 (1.0)
liupfskygre/SOAPdenovo2
Next generation sequencing reads de novo assembler.
liupfskygre/gan
📜 the Great Automatic Nomenclator — The Next Million Names for Archaea and Bacteria
liupfskygre/CRISPRCasFinder
A Perl script allowing to identify CRISPR arrays and associated Cas proteins from DNA sequences
liupfskygre/bioinfo-tools
Just a collection of (often poor) scripts to do various bits of bioinformatics stuff I find myself needing to do.
liupfskygre/plotly.js
Open-source JavaScript charting library behind Plotly and Dash
liupfskygre/enrichM
Toolbox for comparative genomics of MAGs
liupfskygre/DnaFeaturesViewer
:eye: Python library to plot DNA sequence features (e.g. from Genbank files)
liupfskygre/amplicon
Statistics and visualization for amplicon data
liupfskygre/kraken2
The second version of the Kraken taxonomic sequence classification system
liupfskygre/phylophlan
Precise phylogenetic analysis of microbial isolates and genomes from metagenomes
liupfskygre/OWC_sulfate_reduction
this is a side story on sulfate reduction in OWC wetland based on 16S, biogeochemical, metaG, metaT