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bluehead_methylome_bioinformatics

chslabmirnapipeline

Teach using, miRNA-seq analysis pipeline

ctk

CLIP Tool Kit (CTK)

cutandtag

Analysis pipeline for CUT&TAG data

dragonstar2019

drynetmc

Modeling and characterizing dynamic gene regulatory networks underlying cancer drug resistance based on time course RNA-seq data

escarole

Expression State Clustering on Lineages (Escarole)

gnet2

Gene regulatory network modeling tool (GNET2)

igia

Integrative Gene Isoform Assembler

isoseqapa

Full-length transcriptome construction and Alternative cleavage and PolyAdenylation (APA) analysis by PacBio Isoform Sequencing (Iso-Seq) data

lyy

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methylpy

WGBS/NOMe-seq Data Processing & Differential Methylation Analysis

mirdeep2

Discovering known and novel miRNAs from small RNA sequencing data

mutanet

Automated analysis tool for mutations in promoters, transcription factor binding sites, coding regions and protein domains in the context of gene regulatory networks.

nf-isoseq

Nexflow pipeline for processing PacBio isoseq data

offyerbackv2

A suite of tools to post process gene regulatory networks.

pacbio-isoseq-workflow-for-rice

PacBio IsoSeq Workflow for Rice

pas_reference_rdata_and_testing_data

Pre-build PAS reference and testing data for APAlyzer

rnaseq_tutorial

Informatics for RNA-seq: A web resource for analysis on the cloud. Educational tutorials and working pipelines for RNA-seq analysis including an introduction to: cloud computing, critical file formats, reference genomes, gene annotation, expression, differential expression, alternative splicing, data visualization, and interpretation.

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