dr-joe-wirth / primerForge

Related projects ⓘ

Alternatives and complementary repositories for primerForge

• AfZheng126 / MORA
  MetagenOmic read Re-Assigner and abundance quantifier
  ☆18Updated 5 months ago
• LuoGroup2023 / PanTax
  Strain-level taxonomic classification of metagenomic data using pangenome graphs
  ☆16Updated this week
• phiweger / ideel
  Indels are not ideal - quick test for interrupted ORFs in bacterial/microbial genomes
  ☆15Updated 6 years ago
• MDU-PHL / bohra
  A pipeline for bioinformatics analysis of bacterial genomes
  ☆19Updated 4 months ago
• bluenote-1577 / floria
  Strain-level haplotyping for metagenomes with short or long-reads.
  ☆41Updated 4 months ago
• jonas-fuchs / virHEAT
  Visualize microbial evolution at the SNP level!
  ☆13Updated last week
• erinyoung / roundabout
  Finding regions of similarity between plasmids
  ☆16Updated 2 years ago
• stjacqrm / centroid
  tool to determine optimal refrerence genome given a set of fasta files
  ☆14Updated last year
• mbhall88 / nohuman
  Remove human reads from a sequencing run
  ☆24Updated last month
• kevsilva / StrainFLAIR
  Strain-level abundances estimation in metagenomic samples using variation graphs
  ☆25Updated last year
• AllTheBacteria / Phylign
  Map query sequences to the assemblies of all pre-June 2023 bacteria (https://ftp.ebi.ac.uk/pub/databases/AllTheBacteria/Releases/0.2/) on…
  ☆12Updated 6 months ago
• fpusan / SuperPang
  Non-redundant pangenome assemblies from multiple genomes or bins
  ☆13Updated 3 months ago
• maxibor / sam2lca
  Lowest Common Ancestor from a SAM/BAM/CRAM alignment file
  ☆9Updated 3 months ago
• LaborBerlin / score-assemblies
  Snakemake workflow for scoring and comparing multiple bacterial genome assemblies (Illumina, Nanopore) to reference genome(s).
  ☆24Updated 7 months ago
• OLC-Bioinformatics / ConFindr
  Intra-species bacterial contamination detection
  ☆22Updated this week
• pirovc / grimer
  GRIMER performs analysis of microbiome studies and generates a portable and interactive dashboard integrating annotation, taxonomy and me…
  ☆21Updated last year
• Adamtaranto / blast-besties
  Rapid discovery of reciprocal best blast pairs.
  ☆10Updated 2 weeks ago
• mbhall88 / drprg
  Drug Resistance Prediction with Reference Graphs
  ☆19Updated last year
• iqbal-lab-org / pling
  Plasmid analysis using rearrangement distances
  ☆30Updated last week
• typhoidgenomics / genotyphi
  Assign genotypes to Salmonella Typhi genomes based on VCF files (mapped to Typhi CT18 reference genome)
  ☆23Updated last month
• mbhall88 / classification_benchmark
  Benchmarking different ways of doing read (taxonomic) classification, with a focus on removal of contamination and MTB classification
  ☆11Updated 7 months ago
• KoslickiLab / YACHT
  A mathematically characterized hypothesis test for organism presence/absence in a metagenome
  ☆30Updated last week
• oschwengers / tadrep
  Targeted Detection and Reconstruction of Plasmids
  ☆19Updated 6 months ago
• karel-brinda / MiniPhy
  Phylogenetic compression of extremely large genome collections [661k ↘𝟭𝟲𝗚𝗶𝗕 | BIGSIdata ↘𝟰𝟴𝗚𝗶𝗕 | AllTheBact'23 ↘𝟳𝟱𝗚𝗶𝗕]
  ☆20Updated this week
• iqbal-lab-org / make_prg
  Code to create a PRG from a Multiple Sequence Alignment file
  ☆22Updated 7 months ago
• mbhall88 / tbpore
  Mycobacterium tuberculosis genomic analysis from Nanopore sequencing data
  ☆11Updated 5 months ago
• taxprofiler / taxpasta
  TAXnomic Profile Aggregation and STAndardisation
  ☆34Updated 3 weeks ago
• yosuken / ccfind
  ccfind - circular complete genome finder with clues of terminal redundancy
  ☆15Updated 4 years ago
• oxli-bio / oxli
  k-mers and the like
  ☆15Updated this week