Alternatives and similar repositories for phylonium:

Users that are interested in phylonium are comparing it to the libraries listed below

• rrwick / Rebaler
  reference-based long read assemblies of bacterial genomes
  ☆47Updated 3 years ago
• bluenote-1577 / floria
  Strain-level haplotyping for metagenomes with short or long-reads.
  ☆50Updated 7 months ago
• rvicedomini / strainberry
  Automated strain separation of low-complexity metagenomes
  ☆51Updated 3 years ago
• iqbal-lab-org / make_prg
  Code to create a PRG from a Multiple Sequence Alignment file
  ☆22Updated 10 months ago
• cerebis / bin3C
  Extract metagenome-assembled genomes (MAGs) from metagenomic data using Hi-C.
  ☆23Updated last year
• RolandFaure / Hairsplitter
  Software that separates very close sequences that have been collapsed during assembly. Uses only long reads.
  ☆34Updated 2 months ago
• tlemane / kmdiff
  Differential k-mer analysis
  ☆34Updated last year
• mbhall88 / nohuman
  Remove human reads from a sequencing run
  ☆36Updated 4 months ago
• HaploConduct / HaploConduct
  Haplotype-aware genome assembly toolkit
  ☆29Updated 5 years ago
• tseemann / berokka
  🍊 💫 Trim, circularise and orient long read bacterial genome assemblies
  ☆26Updated 5 years ago
• JensUweUlrich / Taxor
  Fast and space-efficient taxonomic classification of long reads
  ☆43Updated 3 months ago
• rrwick / Core-SNP-filter
  a tool to filter sites in a FASTA-format whole-genome pseudo-alignment
  ☆56Updated 3 weeks ago
• HaploKit / Strainline
  Full-length de novo viral haplotype reconstruction from noisy long reads
  ☆17Updated last year
• mbhall88 / lrge
  Genome size estimation from long read overlaps
  ☆48Updated 2 months ago
• tseemann / ekidna
  Assembly based core genome SNP alignments for bacteria
  ☆25Updated 5 years ago
• mw55309 / ideel
  Indels are not ideal - quick test for interrupted ORFs in bacterial/microbial genomes
  ☆53Updated last year
• EvolBioInf / fur
  Find Unique genomic Regions
  ☆29Updated last month
• rrwick / Verticall
  Recombination-free trees
  ☆57Updated last year
• brwnj / idplot
  compare sequences to a shared root reference sequence.
  ☆24Updated 3 years ago
• laurentnoe / yass
  genomic alignment similarity search tool
  ☆19Updated 8 months ago
• JensUweUlrich / ReadBouncer
  Fast and scalable nanopore adaptive sampling
  ☆33Updated last year
• phac-nml / refseq_masher
  Mash MinHash search your nucleotide sequences against a NCBI RefSeq genomes database
  ☆40Updated 4 years ago
• katholt / RedDog
  ☆36Updated 2 years ago
• wdecoster / nanolyse
  Remove lambda phage reads from a fastq file
  ☆28Updated 2 years ago
• HaploKit / vechat
  Correcting errors in noisy long reads using variation graphs
  ☆51Updated 2 years ago
• LaborBerlin / score-assemblies
  Snakemake workflow for scoring and comparing multiple bacterial genome assemblies (Illumina, Nanopore) to reference genome(s).
  ☆24Updated 10 months ago
• lh3 / calN50
  Compute N50/NG50 and auN/auNG
  ☆31Updated last year
• rrwick / Compare-annotations
  A script for comparing old vs new versions of genome annotations
  ☆20Updated last year
• pangenome / PanSN-spec
  Pangenome Sequence Naming: a backwards-compatible hack to simplify the identification of samples and haplotypes in pangenomes
  ☆38Updated 4 months ago
• mjsull / chromatiblock
  Colinear block visualisation tool
  ☆30Updated last year