cortes-ciriano-lab / savanaLinks
Somatic structural variant caller for long-read data
☆69Updated 2 weeks ago
Alternatives and similar repositories for savana
Users that are interested in savana are comparing it to the libraries listed below
Sorting:
- ☆48Updated 10 months ago
- Toolkit for calling structural variants using short or long reads☆105Updated last week
- Wally: Visualization of aligned sequencing reads and contigs☆118Updated 2 months ago
- Set of tools to manipulate and visualize modified base bam files☆56Updated 2 years ago
- Lima - Demultiplex Barcoded PacBio Samples☆67Updated last month
- Genome annotation with PacBio Iso-Seq. Takes raw subreads as input, generate Full Length Non Chemiric (FLNC) sequences and produce a bed …☆43Updated 3 weeks ago
- Error correction of ONT transcript reads☆58Updated last year
- Comprehensive TE insertion identification with WGS/WES data from multiple sequencing technics☆113Updated 2 weeks ago
- ENCODE long read RNA-seq pipeline☆48Updated 2 years ago
- A tool for somatic structural variant calling using long reads☆136Updated last month
- Collection of tools for the analysis of CpG data☆85Updated 4 months ago
- EM based transcript abundance from nanopore reads mapped to a transcriptome with minimap2☆61Updated 8 months ago
- Tandem repeat genotyping and visualization from PacBio HiFi data☆118Updated last month
- ☆40Updated this week
- MIP based joint inference of copy number and rearrangement state in cancer whole genome sequence data.☆57Updated 3 months ago
- Fast and accurate coordinate conversion between assemblies☆114Updated 3 months ago
- 🚀 LiftOn: Accurate annotation mapping for GFF/GTF across assemblies☆104Updated 4 months ago
- A tool to identify, orient, trim and rescue full length cDNA reads☆82Updated 2 years ago
- Methylation Phasing for Nanopore Sequencing☆48Updated 2 years ago
- An analysis pipeline for long-reads from both PacBio and Oxford Nanopore Technologies (ONT), written in Nextflow.☆32Updated this week
- ClairS-TO - a deep-learning method for tumor-only somatic variant calling☆62Updated 3 months ago
- Simple pileup-based variant caller☆90Updated 2 months ago
- ☆39Updated last year
- Same species annotation lift over pipeline.☆97Updated last year
- SQANTI2 is now replaced by SQANTI3. Please go to: https://github.com/ConesaLab/SQANTI3☆38Updated 5 years ago
- Public Benchmark of Long-Read Structural Variant Caller on PacBio CCS HG002 Data☆51Updated 4 years ago
- The Flexible Demultiplexer☆31Updated last week
- DEPRECATED - Workflow for the comprehensive detection and prioritization of variants in human genomes with PacBio HiFi reads☆38Updated last year
- Correct mismatches, microindels, and noncanonical splice junctions in long reads that have been mapped to the genome☆68Updated last year
- Mapping pipeline for data generated using Arima-HiC☆78Updated last year