Genomics Data Analysis

Multiple Sequence Alignment

It is essential for users to obtain sequence alignments when studying the evolution of a gene or a genomic region. The Representational State Transfer (REST) interface can be used to retrieve a region of multi-genome alignments for multiple species. The eGPS REST APIs will be released publicly in the near future.

A demo result URL demo

BWA

BWA is a software package for mapping low-divergent sequences against a large reference genome, such as the human genome. It consists of three algorithms: BWA-backtrack, BWA-SW and BWA-MEM.

A demo result URL demo

BWA-GATK

Pipeline from sequencing reads to visualization of VCF. The eGPS provides a number of useful pipelines, including sequencing reads (after quality control) mapping, duplicates marking, single nucleotide polymorphisms and small indel variation can be called from population sequencing data.

A demo result URL demo

VCFtools

VCFtools is a suite of functions for use on genetic variation data in the form of VCF and BCF files. The tools provided will be used mainly to summarize data, run calculations on data, filter out data, and convert data into other useful file formats.

A demo result URL demo

CIRI-full

CIRI-full is an accurate, high-throughput approach that uses both BSJ and reverse overlap (RO) features to reconstruct full-length circular RNAs from RNA-seq data sets

A demo result URL demo

MAP

MAP is an useful tool for model-based analysis of proteomic data to detect proteins with significant abundance changes between two samples.

A demo result URL demo
  • Strategic Priority Research Program of the Chinese Academy of Sciences,Grant No. XDB13000000
    Maintained by BIG Data Center, Beijing Institute of Genomics, Chinese Academy of Sciences.