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)☆158Updated 2 years ago
- ☆103Updated last month
- ☆134Updated last month
- Iso-Seq - Scalable De Novo Isoform Discovery from Single-Molecule PacBio Reads☆219Updated 2 months ago
- classify, merge, tracking and annotation of GFF files by comparing to a reference annotation GFF☆241Updated 2 months ago
- Tools for plotting methylation data in various ways☆160Updated last month
- pbsv - PacBio structural variant (SV) calling and analysis tools☆158Updated 6 months ago
- Workflows and tutorials for LongRead analysis with specific focus on Oxford Nanopore data☆142Updated last month
- Nextflow pipeline for analysis of direct RNA Nanopore reads☆106Updated 2 months ago
- Pipeline for calling structural variations in whole genomes sequencing Oxford Nanopore data☆114Updated 3 years ago
- Nanopore RNA-Seq data from the Singapore Nanopore-Expression Project☆135Updated 3 weeks ago
- Detection of RNA modifications from Oxford Nanopore direct RNA sequencing reads (Liu*, Begik* et al., Nature Comm 2019)☆117Updated 2 months ago
- Jasmine: SV Merging Across Samples☆225Updated 8 months ago
- BAM Statistics, Feature Counting and Annotation☆149Updated this week
- LongQC is a tool for the data quality control of the PacBio and ONT long reads.☆172Updated last year
- PacBio Assembly Tool Suite: Reads in ⇨ Assembly out☆118Updated 5 years ago
- A minimap2 frontend for PacBio native data formats☆204Updated 6 months ago
- A structural variation pipeline for short-read sequencing☆193Updated this week
- PacBio Secondary Analysis Tools on Bioconda. Contains list of PacBio packages available via conda.☆275Updated 7 months ago
- Reference-guided transcript discovery and quantification for long read RNA-Seq data☆217Updated 3 weeks ago
- FEELnc : FlExible Extraction of LncRNA☆90Updated last month
- Variant Calling Pipeline Using GATK4 and Nextflow☆58Updated 2 years ago
- Technology agnostic long read analysis pipeline for transcriptomes☆149Updated last year
- GATK RNA-Seq Variant Calling in Nextflow☆136Updated 2 years ago
- A tool to identify, orient, trim and rescue full length cDNA reads☆82Updated 3 years ago
- Structural variation and indel detection by local assembly☆246Updated this week
- Control-FREEC: Copy number and genotype annotation in whole genome and whole exome sequencing data☆170Updated last year
- software tools for haplotype assembly from sequence data☆222Updated 7 months ago
- Meta-pipeline to identify transposable element insertions using next generation sequencing data☆103Updated 3 months ago
- Transcript discovery and quantification with long RNA reads (Nanopores and PacBio)☆179Updated last week