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The Top 23 Amplicon Open Source Projects

Open source projects categorized as Amplicon
Categories > Amplicon
Vsearch ⭐ 605
Versatile open-source tool for microbiome analysis
total releases 1most recent commit 5 months ago
Dada2 ⭐ 428
Accurate sample inference from amplicon data with single nucleotide resolution
most recent commit 5 months ago
Decontam ⭐ 122
Simple statistical identification and removal of contaminants in marker-gene and metagenomics sequencing data
most recent commit a year ago
Crispresso ⭐ 110
Software pipeline for the analysis of CRISPR-Cas9 genome editing outcomes from sequencing data
dependent packages 1total releases 51most recent commit 5 years agopypi CRISPResso} Downloads
Viralrecon ⭐ 101
Assembly and intrahost/low-frequency variant calling for viral samples
most recent commit 9 months ago
Tools Microbiome Analysis ⭐ 95
A list of R environment based tools for microbiome data exploration, statistical analysis and visualization
most recent commit a year ago
Flextaxd ⭐ 54
FlexTaxD (Flexible Taxonomy Databases) - Create, add, merge different taxonomy sources (QIIME, GTDB, NCBI and more) and create metagenomic databases (kraken2, ganon and more )
total releases 4most recent commit 7 months ago
Cecret ⭐ 36
Reference-based consensus creation
most recent commit 5 months ago
Dicey ⭐ 32
In-silico PCR, primer design and padlock design for in-situ sequencing
most recent commit 6 months ago
Microbiomeutilities ⭐ 29
The is mostly a wrapper tool using phyloseq and microbiome R packages.
most recent commit 2 years ago
Mageri ⭐ 19
MAGERI - Assemble, align and call variants for targeted genome re-sequencing with unique molecular identifiers
most recent commit 7 years ago
Lorax ⭐ 16
A long-read analysis toolbox for cancer and population genomics
most recent commit 6 months ago
Micca ⭐ 16
micca - MICrobial Community Analysis
most recent commit 4 years ago
Varvamp ⭐ 15
Design degenerated primers on highly variable alignments for full genome sequencing or qPCR. Specifically developed for viruses.
total releases 15most recent commit 5 months ago
Ampliconclassifier ⭐ 12
Classify output of AmpliconArchitect to detect types of focal amplifications present
most recent commit 3 months ago
Amplicon_coverage_plot ⭐ 12
interactive barplot for amplicon sequencing
total releases 10most recent commit a year ago
Vampirus ⭐ 10
Automated virus amplicon sequencing analysis program integrated with Nextflow pipeline manager.
most recent commit 8 months ago
Dada2_guidelines ⭐ 8
A repository with a general dada2 pipeline for amplicon processing
most recent commit 6 months ago
Zamp ⭐ 7
zAMP is a bioinformatic pipeline designed for convenient, reproducible and scalable amplicon-based metagenomics
most recent commit 6 months ago
Megapath ⭐ 5
MegaPath: sensitive and rapid pathogen detection using metagenomic NGS data; MegaPath-Amplicon: filtering module for metagenomic amplicon data
most recent commit 2 years ago
Laca ⭐ 5
A reproducible and scalable workflow for Long Amplicon Consensus Analysis (LACA)
most recent commit 7 months ago
Bioinformatics_pipeline ⭐ 5
Bioinformatics Pipeline
most recent commit 2 years ago
Insilico_pcr ⭐ 5
extract long read subsequences from a pair of primers
most recent commit 2 years ago
The 5 Latest Releases In Amplicon Open Source Projects
Amplicon_coverage_plot ⭐ 12
interactive barplot for amplicon sequencing
total releases 10latest release January 12, 2023most recent commit a year ago
Vsearch ⭐ 605
Versatile open-source tool for microbiome analysis
total releases 1latest release March 03, 2021most recent commit 5 months ago
Crispresso ⭐ 110
Software pipeline for the analysis of CRISPR-Cas9 genome editing outcomes from sequencing data
dependent packages 1total releases 51latest release June 30, 2018most recent commit 5 years agopypi CRISPResso} Downloads
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