mlafave / sam2pairwise
sam2pairwise takes a SAM file and uses the CIGAR and MD tag to reconstruct the pairwise alignment of each read.
☆44Updated 10 years ago
Alternatives and similar repositories for sam2pairwise:
Users that are interested in sam2pairwise are comparing it to the libraries listed below
- Lima - Demultiplex Barcoded PacBio Samples☆65Updated 3 months ago
- A simple toolset for BED files (warning: CLI may change before bedtk becomes stable)☆137Updated 8 months ago
- Snakemake pipelines for nanopore sequencing data archiving and processing☆88Updated 2 years ago
- Tip and tricks for BAM files☆84Updated 6 years ago
- GFF3sort: A Perl Script to sort gff3 files and produce suitable results for tabix tools☆48Updated 4 years ago
- A bioinformatics tutorial demonstrating a best-practice workflow to review a flowcell's sequence_summary.txt☆30Updated 4 years ago
- A catalogue of available long read sequencing data analysis tools☆75Updated 3 weeks ago
- ☆46Updated 2 months ago
- Tools to annotate genomes using long read transcriptomics data☆45Updated 4 years ago
- Fully automated generation of UCSC assembly hubs☆34Updated 3 months ago
- EM based transcript abundance from nanopore reads mapped to a transcriptome with minimap2☆57Updated 3 months ago
- Merging paired-end reads and removing adapters☆45Updated 4 years ago
- ☆48Updated 5 months ago
- Error correction of ONT transcript reads☆58Updated last year
- Wally: Visualization of aligned sequencing reads and contigs☆111Updated last month
- Very simple, pure python, BAM file reader☆79Updated 5 years ago
- Pipeline for annotating genomes using long read transcriptomics data with pinfish☆28Updated 4 years ago
- Somatic structural variant caller for long-read data☆55Updated this week
- BigWig and BAM utilities☆92Updated 10 months ago
- Same species annotation lift over pipeline.☆96Updated last year
- ☆118Updated 2 months ago
- An R package for estimating poly(A)-tail lengths in Oxford Nanopore RNA and DNA reads.☆54Updated 3 months ago
- Maximum likelihood demultiplexing☆46Updated last year
- Set of tools to manipulate and visualize modified base bam files☆49Updated 2 years ago
- A list of software for pangenomics☆96Updated 3 weeks ago
- Toolkit for the design and analysis of amplicon sequencing experiments utilizing unique molecular identifiers (UMIs)☆41Updated 8 months ago
- Simple pileup-based variant caller☆86Updated 9 months ago
- A snakemake pipeline for SV analysis from nanopore genome sequencing☆51Updated 4 years ago
- for visual evaluation of read support for structural variation☆51Updated 7 months ago
- Tools and software library developed by the ONT Applications group☆62Updated 4 years ago