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
- ☆104Updated 2 months ago
- ☆134Updated this week
- Jasmine: SV Merging Across Samples☆227Updated 9 months ago
- pbsv - PacBio structural variant (SV) calling and analysis tools☆159Updated 7 months ago
- Pipeline for calling structural variations in whole genomes sequencing Oxford Nanopore data☆114Updated 3 years ago
- Workflows and tutorials for LongRead analysis with specific focus on Oxford Nanopore data☆142Updated 2 months ago
- Iso-Seq - Scalable De Novo Isoform Discovery from Single-Molecule PacBio Reads☆223Updated 2 months ago
- Tools for plotting methylation data in various ways☆160Updated this week
- A minimap2 frontend for PacBio native data formats☆204Updated 2 weeks ago
- LongQC is a tool for the data quality control of the PacBio and ONT long reads.☆171Updated last year
- Nanopore RNA-Seq data from the Singapore Nanopore-Expression Project☆138Updated last month
- classify, merge, tracking and annotation of GFF files by comparing to a reference annotation GFF☆242Updated 2 months ago
- Detection of RNA modifications from Oxford Nanopore direct RNA sequencing reads (Liu*, Begik* et al., Nature Comm 2019)☆117Updated 2 months ago
- Script to automatically create and run IGV snapshot batchscripts☆143Updated 2 years ago
- A tool to identify, orient, trim and rescue full length cDNA reads☆82Updated 3 years ago
- Meta-pipeline to identify transposable element insertions using next generation sequencing data☆104Updated 4 months ago
- software tools for haplotype assembly from sequence data☆222Updated 7 months ago
- Nextflow pipeline for analysis of direct RNA Nanopore reads☆108Updated 3 months ago
- GATK RNA-Seq Variant Calling in Nextflow☆136Updated 2 years ago
- SALSA: A tool to scaffold long read assemblies with Hi-C data☆187Updated last year
- BAM Statistics, Feature Counting and Annotation☆150Updated this week
- PacBio Assembly Tool Suite: Reads in ⇨ Assembly out☆118Updated 5 years ago
- A structural variation pipeline for short-read sequencing☆194Updated this week
- Control-FREEC: Copy number and genotype annotation in whole genome and whole exome sequencing data☆171Updated last year
- Technology agnostic long read analysis pipeline for transcriptomes☆151Updated last year
- WisecondorX — An evolved WISECONDOR☆103Updated last month
- PacBio Secondary Analysis Tools on Bioconda. Contains list of PacBio packages available via conda.☆277Updated 8 months ago
- Annotation and Ranking of Structural Variation☆263Updated last week
- ☆123Updated 2 months ago