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1. pipeline_utrons pipeline_utrons Public

   Forked from sudlab/pipeline_utrons

   Pipeline to detect 3'UTR introns (3UIs or "utrons") and quantify their expression in RNA-sequencing data. Pipeline forked from sudlab/pipeline_utrons to use newer version of Salmon and incorporate …

   Python

2. pipeline_DTU pipeline_DTU Public

   Pipeline to determine differential transcript usage (DTU) from RNA-sequencing data and detects flips in isoform expression between experimental conditions.

   Python

3. pipeline_fastqc pipeline_fastqc Public

   Pipeline to download raw sequencing read data in .fastq format from .remote files given as inputs and run quality control on them. Sourced from sudlab shared network at The University of Sheffield.

   Python

4. pipeline_QAPA pipeline_QAPA Public

   Pipeline to detect the occurrence of differential alternative polyadenylation (APA) between sets of RNA-sequencing reads from different experimental conditions

   Python

5. pipeline_rMATS pipeline_rMATS Public

   Pipeline to detect differential alternative splicing from RNA-sequencing data by using the rMATS software.

   Python

6. process_qPCRs process_qPCRs Public

   Pipeline used in the analysis of qPCR data between 3'UTR intron splicing and retaining isoforms.

   Python