Population analysis PIPEline ๐ ๐งฌ
โ28Mar 2, 2026Updated 6 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
- โ37Updated this week
- All The Bacteria CLI โ query 3.2M bacterial genomes (AMR, MLST, assemblies, metadata) from the terminalโ35Sep 2, 2026Updated 2 weeks ago
- โ10Apr 16, 2025Updated last year
- Variant calling pipeline designed for Q20+ ONT long-readsโ15Updated this week
- Proton VPN Special Offer - Get 70% off โข AdSpecial partner offer. Trusted by over 100 million users worldwide. Tested, Approved and Recommended by Experts.
- Bifrost graph gene caller.โ101Aug 31, 2026Updated 2 weeks ago
- PopPUNK ๐จโ๐ค (POPulation Partitioning Using Nucleotide Kmers)โ111Jun 2, 2026Updated 3 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 6 months ago
- Automated long-read first bacterial genome assembly tool implemented in Snakemake using Snaketool.โ156Jul 24, 2026Updated last month
- SEER, reimplemented in python ๐๐ฎโ138Jul 23, 2026Updated last month
- Bacterial GWAS analysisโ58Jun 12, 2026Updated 3 months ago
- Mycobacterium tuberculosis genomic analysis from Nanopore sequencing dataโ15Jun 5, 2026Updated 3 months ago
- A methodology to rapidly leverage whole genome sequencing of bacterial isolates for clinical identification.โ36Aug 11, 2026Updated last month
- Simple, predictable pricing with DigitalOcean hosting โข AdAlways know what you'll pay with monthly caps and flat pricing. Enterprise-grade infrastructure trusted by 600k+ customers.
- Plasmid analysis using rearrangement distancesโ56Jul 19, 2026Updated 2 months ago
- A Nextflow pipeline for viral genomics (Influenza/RSV) supporting Illumina and Nanopore sequencing of clinical and wastewater samples.โ10Jun 9, 2026Updated 3 months ago
- Development repo for pyani-plus (the next iteration of pyani)โ36Updated this week
- Mandrake ๐ฟ/๐จโ๐ฌ๐ฆ โ Fast visualisation of the population structure of pathogens using Stochastic Cluster Embeddingโ41Aug 7, 2026Updated last month
- Fast pairwise transmission inference from single genome and/or metagenomic dataโ39Aug 21, 2026Updated 3 weeks ago
- SeqWho - A reliable and rapid FASTQ(A) file classifierโ11Jan 21, 2022Updated 4 years ago
- BACTpipe: An assembly and annotation pipeline for bacterial genomicsโ21Aug 13, 2026Updated last month
- Evaluating Nanopore-based bacterial variant callingโ23Jul 23, 2025Updated last year
- A hybrid assembly and MAG recovery pipeline (and more!)โ119Sep 9, 2026Updated last week
- 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.
- Assembly of Nanopore Sequencingโ17Sep 1, 2026Updated 2 weeks ago
- Split k-mer analysis โ version 2โ106Jul 9, 2026Updated 2 months ago
- BRICK creates a BRIG-like interactive data visualisation for bacterial genome annotations and comparisonsโ22Sep 9, 2026Updated last week
- A tool to detect acquired AMR genes directly from long read sequencing data.โ28Jan 31, 2026Updated 7 months ago
- Uses cDBG to count unitigs in bacterial populationsโ19Feb 15, 2023Updated 3 years ago
- Follow up to Grace Blackwell's 661k dataset, for 2023โ156Jun 10, 2026Updated 3 months ago
- sunburst plots for taxonomy - working to update Kronaโ48Sep 22, 2025Updated 11 months ago
- Methods to determine sequence element (unitig) presence/absenceโ28Mar 6, 2026Updated 6 months ago
- A tool for generating consensus long-read assemblies for bacterial genomesโ239Updated this week
- Simple, predictable pricing with DigitalOcean hosting โข AdAlways know what you'll pay with monthly caps and flat pricing. Enterprise-grade infrastructure trusted by 600k+ customers.
- Workflow for MAG quality assessment and taxonomical annotation.โ15May 26, 2026Updated 3 months ago
- Melon: metagenomic long-read-based taxonomic identification and quantification using marker genesโ38Jun 4, 2026Updated 3 months ago
- Fast, scalable, accurate and accessible Bayesian phylogeneticsโ47Updated this week
- Graph-based assembly phasingโ102Nov 25, 2025Updated 9 months ago
- โ27Apr 20, 2023Updated 3 years ago
- SeqSero2โ41Oct 1, 2025Updated 11 months ago
- โ20Updated this week