nanoporetech / pipeline-transcriptome-deLinks
Pipeline for differential gene expression (DGE) and differential transcript usage (DTU) analysis using long reads
☆108Updated 2 years ago
Alternatives and similar repositories for pipeline-transcriptome-de
Users that are interested in pipeline-transcriptome-de are comparing it to the libraries listed below
Sorting:
- Transcriptome Annotation by Modular Algorithms (for long read RNA sequencing data)☆173Updated 2 years ago
- ☆110Updated 2 months ago
- ☆149Updated last week
- Iso-Seq - Scalable De Novo Isoform Discovery from Single-Molecule PacBio Reads☆230Updated 6 months ago
- Workflows and tutorials for LongRead analysis with specific focus on Oxford Nanopore data☆142Updated 6 months ago
- Tools for plotting methylation data in various ways☆169Updated 2 months ago
- pbsv - PacBio structural variant (SV) calling and analysis tools☆161Updated 11 months ago
- Pipeline for calling structural variations in whole genomes sequencing Oxford Nanopore data☆115Updated 4 years ago
- Nextflow pipeline for analysis of direct RNA Nanopore reads☆109Updated 2 months ago
- A minimap2 frontend for PacBio native data formats☆210Updated last week
- LongQC is a tool for the data quality control of the PacBio and ONT long reads.☆179Updated 2 years ago
- Detection of RNA modifications from Oxford Nanopore direct RNA sequencing reads (Liu*, Begik* et al., Nature Comm 2019)☆118Updated 6 months ago
- classify, merge, tracking and annotation of GFF files by comparing to a reference annotation GFF☆256Updated 6 months ago
- Nanopore RNA-Seq data from the Singapore Nanopore-Expression Project☆149Updated last week
- Match up paired end fastq files quickly and efficiently.☆153Updated last year
- FEELnc : FlExible Extraction of LncRNA☆93Updated 6 months ago
- Control-FREEC: Copy number and genotype annotation in whole genome and whole exome sequencing data☆175Updated last year
- A tool to identify, orient, trim and rescue full length cDNA reads☆83Updated 3 years ago
- Tool for the Quality Control of Long-Read Defined Transcriptomes☆250Updated this week
- ☆122Updated 6 months ago
- Technology agnostic long read analysis pipeline for transcriptomes☆156Updated 2 years ago
- Jasmine: SV Merging Across Samples☆237Updated last year
- software tools for haplotype assembly from sequence data☆226Updated 11 months ago
- PacBio Assembly Tool Suite: Reads in ⇨ Assembly out☆117Updated 5 years ago
- Script to automatically create and run IGV snapshot batchscripts☆142Updated 3 years ago
- SALSA: A tool to scaffold long read assemblies with Hi-C data☆188Updated last year
- PacBio Secondary Analysis Tools on Bioconda. Contains list of PacBio packages available via conda.☆285Updated last year
- Comprehensive TE insertion identification with WGS/WES data from multiple sequencing technics☆119Updated 7 months ago
- a python extension of CNVnator -- a tool for CNV analysis from depth-of-coverage by mapped reads☆210Updated 4 months ago
- GATK RNA-Seq Variant Calling in Nextflow☆137Updated 3 years ago