Population analysis PIPEline ๐ ๐งฌ
โ26Mar 2, 2026Updated 5 months ago
Alternatives and similar repositories for PopPIPE
Users that are interested in PopPIPE are comparing it to the libraries listed below. We may earn a commission when you buy through links labeled 'Ad' on this page.
Sorting:
- Indels are not ideal - quick test for interrupted ORFs in bacterial/microbial genomesโ16Jun 26, 2018Updated 8 years ago
- โ35Updated this week
- All The Bacteria CLI โ query 3.2M bacterial genomes (AMR, MLST, assemblies, metadata) from the terminalโ33Updated this week
- โ10Apr 16, 2025Updated last year
- Bifrost graph gene caller.โ99Jun 18, 2026Updated last month
- GPUs on demand by Runpod - Special Offer Available โข AdRun AI, ML, and HPC workloads on powerful cloud GPUsโwithout limits or wasted spend. Deploy GPUs in under a minute and pay by the second.
- Variant calling pipeline designed for Q20+ ONT long-readsโ15Jan 23, 2026Updated 6 months ago
- PopPUNK ๐จโ๐ค (POPulation Partitioning Using Nucleotide Kmers)โ109Jun 2, 2026Updated 2 months ago
- A microbial genomic analysis pipeline used by the Djordjevic Labโ14Feb 9, 2025Updated last year
- A surveillance-oriented tool to strengthen the linkage between pathogen genetic clusters and epidemiological dataโ50Feb 20, 2026Updated 5 months ago
- Automated long-read first bacterial genome assembly tool implemented in Snakemake using Snaketool.โ153Jul 24, 2026Updated 2 weeks ago
- SEER, reimplemented in python ๐๐ฎโ137Jul 23, 2026Updated 2 weeks ago
- Bacterial GWAS analysisโ58Jun 12, 2026Updated last month
- Mycobacterium tuberculosis genomic analysis from Nanopore sequencing dataโ15Jun 5, 2026Updated 2 months ago
- A methodology to rapidly leverage whole genome sequencing of bacterial isolates for clinical identification.โ35Jul 11, 2026Updated 3 weeks ago
- Open source password manager - Proton Pass โข AdSecurely store, share, and autofill your credentials with Proton Pass, the end-to-end encrypted password manager trusted by millions.
- Plasmid analysis using rearrangement distancesโ56Jul 19, 2026Updated 3 weeks ago
- A Nextflow pipeline for viral genomics (Influenza/RSV) supporting Illumina and Nanopore sequencing of clinical and wastewater samples.โ10Jun 9, 2026Updated 2 months ago
- Development repo for pyani-plus (the next iteration of pyani)โ35Updated this week
- Mandrake ๐ฟ/๐จโ๐ฌ๐ฆ โ Fast visualisation of the population structure of pathogens using Stochastic Cluster Embeddingโ40Updated this week
- Fast pairwise transmission inference from single genome and/or metagenomic dataโ37Updated this week
- SeqWho - A reliable and rapid FASTQ(A) file classifierโ11Jan 21, 2022Updated 4 years ago
- BACTpipe: An assembly and annotation pipeline for bacterial genomicsโ20Dec 3, 2024Updated last year
- Evaluating Nanopore-based bacterial variant callingโ23Jul 23, 2025Updated last year
- A hybrid assembly and MAG recovery pipeline (and more!)โ116Updated this week
- Wordpress hosting with auto-scaling - Free Trial Offer โข AdFully Managed hosting for WordPress and WooCommerce businesses that need reliable, auto-scalable performance. Cloudways SafeUpdates now available.
- Assembly of Nanopore Sequencingโ17May 21, 2026Updated 2 months ago
- Split k-mer analysis โ version 2โ105Jul 9, 2026Updated last month
- Methods to determine sequence element (unitig) presence/absenceโ27Mar 6, 2026Updated 5 months ago
- BRICK creates a BRIG-like interactive data visualisation for bacterial genome annotations and comparisonsโ22Dec 9, 2025Updated 8 months ago
- A tool to detect acquired AMR genes directly from long read sequencing data.โ28Jan 31, 2026Updated 6 months ago
- Uses cDBG to count unitigs in bacterial populationsโ18Feb 15, 2023Updated 3 years ago
- Follow up to Grace Blackwell's 661k dataset, for 2023โ152Jun 10, 2026Updated 2 months ago
- sunburst plots for taxonomy - working to update Kronaโ46Sep 22, 2025Updated 10 months ago
- A tool for generating consensus long-read assemblies for bacterial genomesโ236Updated this week
- Managed hosting for WordPress and PHP on Cloudways โข AdManaged hosting for WordPress, Magento, Laravel, or PHP apps, on multiple cloud providers. Deploy in minutes on Cloudways by DigitalOcean.
- Workflow for MAG quality assessment and taxonomical annotation.โ15May 26, 2026Updated 2 months ago
- Melon: metagenomic long-read-based taxonomic identification and quantification using marker genesโ38Jun 4, 2026Updated 2 months ago
- Fast, scalable, accurate and accessible Bayesian phylogeneticsโ46Updated this week
- Graph-based assembly phasingโ99Nov 25, 2025Updated 8 months ago
- โ27Apr 20, 2023Updated 3 years ago
- SeqSero2โ41Oct 1, 2025Updated 10 months ago
- โ20Jan 13, 2026Updated 6 months ago