Bioinformatics Programming - Transcriptome Assembly

collab | DFC

A Google Colab notebook/web server for predicting splice sites from a single sequence using Pangolin

A package dedicated to the simulation of sequencing read data corresponding to randomly generated genes with predifined splice-models for the evaluation of transcriptome assembly tools

Detect and quantify plasmid DNA contamination in sequencing data

🗺️ MAPP is a computational method which enables identification of binding motifs for RNA-binding proteins that shape pre-mRNA processing under specific conditions.

Multiple argument piping for R

Aberrant splicing;Cryptic splice site;Cryptic exons;Cryptic Junctions;Splicing fidelity

A tool to determine locations of potential novel intronic splicing

snakemake refactoring of legacy code for splicing analysis

This is Scramble, a command-line program written in C that encrypts files using inversion, reversal, hashing, or splicing algorithms.

Calculate five major splicing events using rMATS followed by annotation

Slices a sprite into multiple square sprites, supports rotation and scaling

A method to calculate intron splicing order

all the scripts to reproduce the results in the splam paper

Analysis of cryptic splicing in the STMN2 locus across the NYGC ALS consortium

CLI tool using Bluetooth and Python to control the Signalfire AI-9 Fiber Fusion Splicer

A simple Perl script to compute DeltaESRSeq to predict exon skipping induced by exonic variants

Method to identify temporal and sex-specific alternative splicing from multi-omic data, specifically RNA-seq + (CUT&RUN or ChIP-seq).

A tool for calculating PPI network rewiring due to alternative splicing