Xinglab/SQUID

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2
Language
Python
License
GNU General Publi...
Created over 8 years ago
Updated about 5 years ago

Xinglab/SQUID

Xinglab

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Stringent Quantitation of Unspliced Intron by Deep-sequencing

rmats-turbo

rmats2sashimiplot

DARTS

Deep-learning Augmented RNA-seq analysis of Transcript Splicing

espresso

CLAM

CLIP-seq Analysis of Multi-mapped reads

lr2rmats

Long read to rMATS

IRIS

IRIS: Isoform peptides from RNA splicing for Immunotherapy target Screening

rMATS-long

rMATS-DVR

PEGASAS

Pathway Enrichment-Guided Activity Study of Alternative Splicing (PEGASAS)

TideHunter

TideHunter: efficient and sensitive tandem repeat detection from noisy long reads using seed-and-chain

rPGA

rMATS-STAT

abPOA

abPOA: an SIMD-based C library for fast partial order alignment using adaptive band

GTEx-brain-sQTL

SEASTAR

SEASTAR - Systematic Evaluation of Alternative transcription STArt site in RNA

PAIRADISE

Paired Replicate Analysis of Allelic Differential Splicing Events

Myc-regulated_AS_PrCa_paper

Scripts for plotting figures and running analysis throughout the manuscript

isoCirc

TEQUILA-seq

The scripts contained in this repository were used for processing, analyzing, and visualizing TEQUILA-seq data.

GLiMMPS

SURVIV

Survival Analysis of mRNA Isoform Variation

siri

ASPRIN

intron-retention-paper

Jupyter Notebook

proteoseq

Proteotranscriptome pipeline

Xinglab.github.io

iDARTS

Predicting splicing effects of human genome variants from sequences

rmats-turbo-tutorial