CLIP-seq data analysis bioinformatics software tools

Cross-Linking Immunoprecipitation associated to high-throughput sequencing (CLIP-seq) is a technique used to identify RNA directly bound to RNA-binding proteins across the entire transcriptome in cell or tissue samples. Recent technological and computational advances permit the…

CLIP-seq analysis steps

CLIP-seq data analysis bioinformatics software tools

Most Recent Tools

G T A T C G C T A
EASANA
Web

EASANA

Allows to display microarray data in their genomic context. EASAN is a…

Allows to display microarray data in their genomic context. EASAN is a user-friendly interface to genome-wide gene expression studies using microarrays and Next Generation Sequencing (NGS). This tool…

Regulome…
Web

Regulome Explorer

Enables users to search, filter, and visualize analytical results generated…

Enables users to search, filter, and visualize analytical results generated from the Cancer Genome Atlas (CGA) data. Regulome Explorer is a visualization resource that permits to illustrate example…

visPIG
Web
Desktop

visPIG VISual Plotting Interface for Genetics

Permits to produce figures containing multiple (epi-) genetic data tracks.…

Permits to produce figures containing multiple (epi-) genetic data tracks. visPIG can display multiple data tracks across multiple regions at multiple scales. It provides options to plot multiple…

G T A T C G C T A
COSINE
Desktop

COSINE

Aligns long sequences with high variations or errors including insertions and…

Aligns long sequences with high variations or errors including insertions and deletions to the target. COSINE has a predictable computational resource usage for mapping reads from E. coli genome, S.…

Most Popular Tools

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SAMtools
Desktop

SAMtools

A suite of programs for interacting with high-throughput sequencing data. It…

A suite of programs for interacting with high-throughput sequencing data. It can manipulate alignments in the SAM/BAM/CRAM formats : reading, writing, editing, indexing, viewing and converting…

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Bowtie
Desktop

Bowtie

An ultrafast, memory-efficient short read aligner. It aligns short DNA…

An ultrafast, memory-efficient short read aligner. It aligns short DNA sequences (reads) to the human genome at a rate of over 25 million 35-bp reads per hour. Bowtie indexes the genome with a…

ZENBU
Web

ZENBU

Enables data exploration through "on-demand" data processing and…

Enables data exploration through "on-demand" data processing and interactive linked-visualizationsthus enabling concurrent views from the same mere primary sequence alignment data which…

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MicroMUMMIE
Desktop

MicroMUMMIE

A specific model, implemented within the MUMMIE framework, for predicting…

A specific model, implemented within the MUMMIE framework, for predicting micro-RNA binding sites using PAR-CLIP data.

Curators for CLIP-seq analysis

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