LinXing Chen's Projects
Predict prokaryotic hosts for phage (meta) genomic sequences
Phage-Host Interaction Search Tool
Software for prediction of plasmid sequences in metagenomic assemblies
This tool predicts plasmid sequences from genomic and metagenomic assemblies using machine learning.
PlasX, a machine learning classifier for identifying plasmid sequences based on genetic architecture
Python3 wrapper for parallelized gene prediction using Prodigal
A fork of Prodigal meant to improve gene calling for giant viruses and viruses that use alternative genetic codes
Utility program for extracting sequences from a fasta/fastq file
A web interface to create custom vector-based visualizations on top of RAWGraphs core
C++ program to shrink the SAM file after a read-mapping
Windowed Adaptive Trimming for fastq files using quality
Indexing large assembly graphs -- remember, in space, no one can hear you miao!
a tool for creating a FASTG contig graph from a SPAdes assembly
NEW!!! Phage annotations and predictions. A spae is a prediction or foretelling. We'll foretell you what your phage is doing!
SRA Tools
Taxonomic classification of metagenomic contigs
detect temperate phage (active prophage) in assembled bacterial genome sequences
Quick get the taxonomy of a genome
Uniform Manifold Approximation and Projection
A pipeline for detecting mis-assemblies in metagenomic assemblies.
Virus Identification By iteRative ANnoTation
a command line tool for viral proteomic tree generation, part of the ViPTree project: http://www.genome.jp/viptree
A wrapper to identify, bin, classify, and predict host-viral relationship for viruses
Virus Protein Family tools