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Snakemake pipeline to detect binding sites of RNA-binding proteins on a given RNA sequence.
HTSinfer infers metadata from High Throughput Sequencing (HTS) data
scripts, pipelines and documentation to run PAQR and KAPAC; KAPAC allows to infer regulatory sequence motifs implicated in 3’ end processing changes; PAQR enables the quantification of poly(A) site usage from standard RNA-seq data
Dockerfile repository of the Zavolan Lab
Merge kallisto results from multiple runs
Prune nh files based on a list of organisms
Zavolan-Lab repository for CWL Tools and Workflows
gtf conversion utlity
Notebook of SELEX data analysis
Pipeline for the processing of 3' end sequencing libraries
Snakemake example workflow with singularity
Comparative assessment of methods for the computational inference of transcript isoform from RNA-seq data. Submitted to Genome Biology (03-2015).
TECtool uses mRNA and 3’ end sequencing data to identify novel terminal exons.
MIRZA-G - Pipeline and model for miRNA target prediction
A pipeline to discover snoRNA-target chimeric reads in CLIP/HTS experiments.