ekg / alignment-and-variant-calling-tutorial
basic walk-throughs for alignment and variant calling from NGS sequencing data
☆214Updated 2 months ago
Alternatives and similar repositories for alignment-and-variant-calling-tutorial:
Users that are interested in alignment-and-variant-calling-tutorial are comparing it to the libraries listed below
- This Snakemake pipeline implements the GATK best-practices workflow☆249Updated last year
- Plot structural variant signals from many BAMs and CRAMs☆539Updated 8 months ago
- Workflows and tutorials for LongRead analysis with specific focus on Oxford Nanopore data☆136Updated 3 years ago
- Miscellaneous collection of Python and R scripts for processing Iso-Seq data☆265Updated last year
- Count bases in BAM/CRAM files☆315Updated 3 years ago
- PacBio Secondary Analysis Tools on Bioconda. Contains list of PacBio packages available via conda.☆267Updated last month
- Iso-Seq - Scalable De Novo Isoform Discovery from Single-Molecule PacBio Reads☆209Updated last month
- Variant calling and somatic mutation/CNV detection for next-generation sequencing data☆157Updated 2 years ago
- Fast and accurate gene fusion detection from RNA-Seq data☆235Updated this week
- ☆264Updated last month
- Tool for the Quality Control of Long-Read Defined Transcriptomes☆213Updated this week
- TransDecoder source☆287Updated 5 months ago
- Web application to explore the Sequence Read Archive.☆215Updated this week
- RTG Tools: Utilities for accurate VCF comparison and manipulation☆313Updated 10 months ago
- A structural variation pipeline for short-read sequencing☆185Updated this week
- VarDict☆194Updated last year
- parallel fastq-dump wrapper☆289Updated last year
- GFF/GTF utility providing format conversions, region filtering, FASTA sequence extraction and more☆402Updated 3 months ago
- This repository contains chromosome/contig name mappings between UCSC <-> Ensembl <-> Gencode for a variety of genomes.☆240Updated 2 years ago
- Python application to generate self-contained pages embedding IGV visualizations, with no dependency on original input files.☆355Updated 3 months ago
- (Not Offical) BBMap short read aligner, and other bioinformatic tools.☆224Updated 4 years ago
- classify, merge, tracking and annotation of GFF files by comparing to a reference annotation GFF☆214Updated 8 months ago
- Repository for the GA4GH Benchmarking Team work developing standardized benchmarking methods for germline small variant calls☆201Updated 4 years ago
- Read trimming tool for Illumina NGS data.☆133Updated 10 years ago
- Full-Length Alternative Isoform analysis of RNA☆222Updated this week
- Genome browser and variant annotation☆297Updated this week
- RepeatMasker is a program that screens DNA sequences for interspersed repeats and low complexity DNA sequences.☆246Updated 2 weeks ago
- Structural variant and indel caller for mapped sequencing data☆422Updated 2 years ago
- An accurate GFF3/GTF lift over pipeline☆474Updated last year
- A package for including transposable elements in differential enrichment analysis of sequencing datasets.☆244Updated last month