genomic-medicine-sweden / nalloLinks
An analysis pipeline for long-reads from both PacBio and Oxford Nanopore Technologies (ONT), written in Nextflow.
☆32Updated last week
Alternatives and similar repositories for nallo
Users that are interested in nallo are comparing it to the libraries listed below
Sorting:
- python plotly Circos from VCF☆38Updated last year
- ☆39Updated last year
- Copy number caller for long read data including SNV utilization☆65Updated 4 months ago
- ☆49Updated 11 months ago
- Structural Variant Index☆75Updated 7 months ago
- Toolkit for calling structural variants using short or long reads☆107Updated this week
- Runs a combination of tools to generate structural variant calls on whole-genome sequencing data☆48Updated 5 years ago
- Set of tools to manipulate and visualize modified base bam files☆56Updated 3 years ago
- ☆43Updated 11 months ago
- Genome annotation with PacBio Iso-Seq. Takes raw subreads as input, generate Full Length Non Chemiric (FLNC) sequences and produce a bed …☆45Updated last month
- Error correction of ONT transcript reads☆58Updated last year
- Somatic structural variant caller for long-read data☆78Updated last month
- ☆30Updated this week
- A Nextflow workflow to generate lift over files for any pair of genomes☆68Updated last month
- Wally: Visualization of aligned sequencing reads and contigs☆118Updated 3 months ago
- TIDDIT - structural variant calling☆75Updated 4 months ago
- ClairS-TO - a deep-learning method for tumor-only somatic variant calling☆66Updated 4 months ago
- DEPRECATED - Workflow for the comprehensive detection and prioritization of variants in human genomes with PacBio HiFi reads☆38Updated last year
- Robust detection of clinically relevant structural and copy number variation from whole genome sequencing data☆72Updated 11 months ago
- EM based transcript abundance from nanopore reads mapped to a transcriptome with minimap2☆62Updated 9 months ago
- fusion transcript detection using long reads, leveraging ctat-minimap2 and FusionInspector☆22Updated this week
- don't get DUP'ed or DEL'ed by your putative SVs.☆106Updated 4 years ago
- Joint structural variant and copy number variant caller for HiFi sequencing data☆59Updated this week
- Functionality for working with pipeline and sample sheet schema files in Nextflow pipelines☆44Updated this week
- A snakemake pipeline for SV analysis from nanopore genome sequencing☆51Updated 5 years ago
- Structural variant merging tool☆53Updated 11 months ago
- Public Benchmark of Long-Read Structural Variant Caller on PacBio CCS HG002 Data☆51Updated 4 years ago
- ☆81Updated 5 months ago
- Fast and accurate coordinate conversion between assemblies☆114Updated 4 months ago
- DNA methylation analysis downstream to Nanopolish for Oxford Nanopore DNA sequencing datasets☆34Updated 4 years ago