broadinstitute / viral-ngsLinks
[THIS REPO IS DEPRECATED] see newer repos: https://github.com/broadinstitute/viral-core https://github.com/broadinstitute/viral-assemble https://github.com/broadinstitute/viral-phylo https://github.com/broadinstitute/viral-classify https://github.com/broadinstitute/viral-pipelines
☆195Updated last year
Alternatives and similar repositories for viral-ngs
Users that are interested in viral-ngs are comparing it to the libraries listed below
Sorting:
- Genome Assembly and Annotation Service code☆216Updated last year
- pycoQC computes metrics and generates Interactive QC plots from the sequencing summary report generated by Oxford Nanopore technologies b…☆284Updated last year
- A tool to circularize genome assemblies☆249Updated last year
- Read trimming tool for Illumina NGS data.☆148Updated 10 years ago
- Assembly and intrahost/low-frequency variant calling for viral samples☆148Updated 2 weeks ago
- structural variant calling and genotyping with existing tools, but, smoothly.☆260Updated last year
- Workflows and tutorials for LongRead analysis with specific focus on Oxford Nanopore data☆143Updated 4 months ago
- 🐙 KrakenUniq: Metagenomics classifier with unique k-mer counting for more specific results☆241Updated last year
- SortMeRNA: next-generation sequence filtering and alignment tool☆281Updated 3 months ago
- An overview of all nanopack tools☆272Updated 2 years ago
- Bayesian haplotype-based mutation calling☆321Updated 2 weeks ago
- (Not Offical) BBMap short read aligner, and other bioinformatic tools.☆243Updated 4 years ago
- PAired-eND Assembler for DNA sequences☆137Updated 4 years ago
- HyPhy: Hypothesis testing using Phylogenies☆245Updated this week
- Windowed Adaptive Trimming for fastq files using quality☆226Updated 8 years ago
- classify, merge, tracking and annotation of GFF files by comparing to a reference annotation GFF☆251Updated 5 months ago
- Quality control for MinION sequencing data☆217Updated 2 years ago
- Nanopore demultiplexing, QC and alignment pipeline☆215Updated 3 weeks ago
- RepeatMasker is a program that screens DNA sequences for interspersed repeats and low complexity DNA sequences.☆283Updated last week
- PASA software☆197Updated 10 months ago
- GATK RNA-Seq Variant Calling in Nextflow☆137Updated 2 years ago
- Classifier for metagenomic sequences☆267Updated 5 months ago
- NGMLR is a long-read mapper designed to align PacBio or Oxford Nanopore (standard and ultra-long) to a reference genome with a focus on r…☆306Updated last year
- Pilon is an automated genome assembly improvement and variant detection tool☆372Updated 3 years ago
- FASTA/FASTQ pre-processing programs☆192Updated 3 years ago
- PacBio Secondary Analysis Tools on Bioconda. Contains list of PacBio packages available via conda.☆284Updated 10 months ago
- Bacterial ribosomal RNA predictor☆262Updated last week
- GFF and GTF file manipulation and interconversion☆309Updated last year
- This repository contains data indexes from NIST's Genome in a Bottle project.☆259Updated 2 years ago
- Miscellaneous collection of Python and R scripts for processing Iso-Seq data☆276Updated 2 years ago