Computes a consensus sequence with wobbles, ambiguous bases, and in-frame insertions, from a NGS read alignment.
☆18May 14, 2018Updated 7 years ago
Alternatives and similar repositories for ConsensusFixer
Users that are interested in ConsensusFixer are comparing it to the libraries listed below
Sorting:
- Viral quasispecies assembly via maximal clique finding. A method to reconstruct viral haplotypes and detect large insertions and deletion…☆26Apr 25, 2018Updated 7 years ago
- Tool for analysing viral diversity from High Throughput Sequencing☆12Nov 20, 2025Updated 3 months ago
- Removing PCR duplicates for sequencing reads.☆14Sep 8, 2020Updated 5 years ago
- Probabilistic inference of viral quasispecies subject to recombination (viral haplotype reconstruction).☆20May 3, 2017Updated 8 years ago
- Repo for the software suite ShoRAH (Short Reads Assembly into Haplotypes)☆41Feb 24, 2023Updated 3 years ago
- ngshmmalign is a profile HMM aligner for NGS reads designed particularly for small genomes (such as those of RNA viruses like HIV-1 and H…☆10May 3, 2018Updated 7 years ago
- Process Illumina instrument data into SAM/BAM/CRAM files.☆10Jan 5, 2026Updated last month
- ☆11Dec 9, 2022Updated 3 years ago
- Set of tools for viral metagenomics.☆14Jan 21, 2026Updated last month
- SeqWho - A reliable and rapid FASTQ(A) file classifier☆10Jan 21, 2022Updated 4 years ago
- SaffronTree: Reference free rapid phylogenetic tree construction from raw read data☆25Jun 11, 2020Updated 5 years ago
- A MinION-based pipeline for tracking species biodiversity☆13Feb 19, 2024Updated 2 years ago
- Documentation for analyzing SARS-Cov2 samples.☆12Jun 4, 2020Updated 5 years ago
- Learning resources originally for a class held December 2020 "Dry bench skills for Researchers". Expanding based upon mini-courses.☆11Jan 27, 2022Updated 4 years ago
- MeGAMerge (A tool to merge assembled contigs, long reads from metagenomic sequencing runs)☆14Dec 7, 2016Updated 9 years ago
- ☆14Oct 3, 2017Updated 8 years ago
- de novo virus assembler of Illumina paired reads☆58May 17, 2021Updated 4 years ago
- A pipeline for Bacterial Whole genome sequence data analysis☆16Jul 24, 2022Updated 3 years ago
- Convert structural variants to sequence graphs [ VCF + FASTA ---> GFA ]☆11Mar 6, 2024Updated last year
- STRspy: a novel alignment and quantification-based state-of-the-art method, short tandem repeat (STR) detection calling tool designed spe…☆18Feb 21, 2026Updated last week
- R tools to interact with hap.py output☆16Jul 12, 2019Updated 6 years ago
- An `R` package for various phylogenetic and evolutionary biology data manipulations☆12Mar 5, 2018Updated 7 years ago
- ClaMSA (Classify Multiple Sequence Alignments).☆13Nov 21, 2024Updated last year
- LoFreq Star: Sensitive variant calling from sequencing data☆110Oct 16, 2025Updated 4 months ago
- Metagenomics/viromics pipeline that focuses on automation, user-friendliness and a clear audit trail. Jovian aims to empower classical bi…☆18Sep 1, 2023Updated 2 years ago
- A wrapper for calling small variants from human germline high-coverage single-sample Illumina data☆14Jul 21, 2019Updated 6 years ago
- Scalable high-throughput short-read open reading frame prediction☆12Jan 13, 2017Updated 9 years ago
- RNAsik - more than just a pipeline☆13Feb 6, 2024Updated 2 years ago
- Generate and process BAM files from Illumina sequencing instrument files☆23Feb 25, 2016Updated 10 years ago
- Assembly of Nanopore Sequencing☆17Jan 8, 2026Updated last month
- Guide to transcriptome assembly & analysis☆21Apr 12, 2017Updated 8 years ago
- Code repository for the manuscript: Nucleotide dependency analysis of DNA language models reveals genomic functional elements☆26Mar 13, 2025Updated 11 months ago
- Bacterial genomes finishing tool for structural insights on draft genomes☆23Sep 22, 2023Updated 2 years ago
- ViralCC: leveraging metagenomic proximity-ligation to retrieve complete viral genomes☆18Feb 3, 2026Updated last month
- easy_sbatch - Batch submitting Slurm jobs with script templates☆16Dec 28, 2021Updated 4 years ago
- Ultrafast sequence typing and gene detection from NGS raw reads☆20Apr 15, 2021Updated 4 years ago
- find large indels (in the blind spot between GATK/freebayes and SV callers)☆39Dec 3, 2017Updated 8 years ago
- ☆20Nov 30, 2023Updated 2 years ago
- Plot genome alignment figure using progressiveMauve & genoPlotR☆22Aug 5, 2022Updated 3 years ago