Alternatives and similar repositories for AliNe

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

• nf-core / detaxizer
  A pipeline to identify (and remove) certain sequences from raw genomic data. Default taxon to identify (and remove) is Homo sapiens. Remo…
  ☆22Updated 2 months ago
• KamilSJaron / k-mer-approaches-for-biodiversity-genomics
  k-mer learning materials
  ☆83Updated 11 months ago
• fmalmeida / MpGAP
  Multi-platform genome assembly pipeline for Illumina, Nanopore and PacBio reads
  ☆64Updated last week
• rki-mf1 / clean
  A nextflow pipeline for decontamination of short reads, long reads and contigs
  ☆55Updated 7 months ago
• insapathogenomics / ReporTree
  A surveillance-oriented tool to strengthen the linkage between pathogen genetic clusters and epidemiological data
  ☆47Updated 3 months ago
• wtmatlock / flanker
  Gene-flank analysis tool
  ☆36Updated last year
• mribeirodantas / NextflowSnippets
  This repository hosts a large collection of Nextflow snippets
  ☆56Updated last year
• nf-core / readsimulator
  A pipeline to simulate sequencing reads, such as Amplicon, Target Capture, Metagenome, and Whole genome data.
  ☆33Updated 7 months ago
• RAHenriksen / NGSNGS
  NGSNGS: Next generation simulator for next generation sequencing data
  ☆56Updated last year
• nf-core / genomeassembler
  Assembly and scaffolding of haploid / unphased genomes from long ONT or PacBio HiFi reads
  ☆31Updated 2 months ago
• bacpop / ska.rust
  Split k-mer analysis – version 2
  ☆103Updated 3 weeks ago
• jonas-fuchs / BAMdash
  create a interactive coverage plot dashboard from bam files and add gb, vcf and bed tracks
  ☆57Updated last month
• yangao07 / longcallD
  A local-haplotagging-based small and structural variant caller
  ☆93Updated 2 weeks ago
• mw55309 / ideel
  Indels are not ideal - quick test for interrupted ORFs in bacterial/microbial genomes
  ☆54Updated 2 years ago
• thackl / minidot
  Fast and pretty dotplots for whole genomes assemblies using minimap and R/ggplot2
  ☆77Updated 9 years ago
• mbhall88 / nohuman
  Remove human reads from a sequencing run
  ☆47Updated last month
• iqbal-lab-org / clockwork
  CRyPTIC data processing pipelines
  ☆34Updated last year
• enasequence / webin-cli
  Webin command line submission program.
  ☆38Updated 4 months ago
• AliTVTeam / AliTV
  Visualize whole genome alignments as linear maps
  ☆74Updated last week
• weisberglab / beav
  BEAV: Bacterial Element Annotation reVamped
  ☆73Updated 5 months ago
• achtman-lab / GrapeTree
  GrapeTree is a fully interactive, tree visualization program, which supports facile manipulations of both tree layout and metadata. Click…
  ☆86Updated last year
• schmeing / ReSeq
  More realistic simulator for genomic DNA sequences from Illumina machines that achieves a similar k-mer spectrum as the original
  ☆51Updated 3 years ago
• kjenike / panagram
  ☆68Updated last week
• calacademy-research / minibar
  Dual barcode and primer demultiplexing for MinION sequenced reads
  ☆41Updated 3 years ago
• telatin / seqfu2
  seqfu - Sequece Fastx Utilities
  ☆126Updated this week
• jonas-fuchs / varVAMP
  Design degenerated primers on highly variable alignments for full genome sequencing or qPCR. Specifically developed for viruses.
  ☆48Updated this week
• vpc-ccg / haslr
  A fast tool for hybrid genome assembly of long and short reads
  ☆78Updated 5 years ago
• OLF-Bioinformatics / VariantDetective
  Identify short variants and structural variants from raw sequencing data or genomic sequences
  ☆34Updated last year
• nf-core / multiplesequencealign
  A pipeline to run and systematically evaluate Multiple Sequence Alignment (MSA) methods.
  ☆40Updated 2 months ago
• bioinfo-chru-strasbourg / vcf2circos
  python plotly Circos from VCF
  ☆40Updated last year