A novel breakpoint-based algorithm for detecting both homozygous and heterozygous INDELs from several base pairs to over thousands of base pairs.
An integrated resource of circRNAs in vertebrates
CIRI (circRNA identifier) is a novel chiastic clipping signal based algorithm, which can unbiasedly and accurately detect circRNAs from transcriptome data by employing multiple filtration strategies.
CIRI-AS is a novel algorithm for identified circular AS isoforms on circRNAs.
CIRI-full is an accurate, high-throughput approach that uses both BSJ and reverse overlap (RO) features to reconstruct and quantify full-length circular RNAs from RNA-seq data sets.
CIRI-vis is a tool for visualizing alignments of BSJ & RO merged reads and estimating the related abundance of isoforms according to the output of CIRI-full.
CIRIquant is a comprehensive analysis pipeline for circRNA detection and quantification in RNA-Seq data.
Detect CIRSPR direct repeats (DRs) and spacers from NGS reads;Annotate DRs and spacers using publicly available WGS bacterial and phage genomes;Build phage-bacteria interaction network using DR-spacer connections.
An Integrative Next-generation Genome Analysis Pipeline.
inGAP-CDG is a novel algorithm for effective construction of full-length and non-redundant CDSs from unassembled transcriptomes.
A new scheme to detect and visualize structural variation from paired-end mapping data.
An integrated software MagicViewer is developed to easily visualize short read mapping, identify and annotate genetic variation based on the reference genome.
A novel experimental and bioinformatic framework for effective construction of bacterial genomes from metagenomic samples.
A comprehensive web server mirTools is developed to allow researchers to comprehensively characterize small RNA transcriptome.
PAFA is a webserver for noncoding variants annotation by integrating abundant functional genomic data.
A novel algorithm to align contigs with more than one reference genome at a time.
A web server to help users automate gap closing based on comparative genomic syntenies.
A novel approach for capturing both ribosomal RNA variable regions and their flanking protein-coding genes simultaneously.