Alternatives and similar repositories for Cogent:

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

• fbemm / onefc-oneasm
  Simple code snippets and data for the One Flowcell - One Assembly study
  ☆36Updated 7 years ago
• sujaikumar / assemblage
  Tools for working with second gen assemblies, fasta sequences, etc
  ☆92Updated 8 years ago
• tanghaibao / allhic
  Genome scaffolding based on HiC data in heterozygous and high ploidy genomes
  ☆59Updated last month
• PacificBiosciences / barcoding
  Lima - Demultiplex Barcoded PacBio Samples
  ☆65Updated 3 months ago
• Oshlack / Lace
  Building SuperTranscripts: A linear representation of transcriptome data
  ☆67Updated 3 years ago
• wdecoster / nano-snakemake
  A snakemake pipeline for SV analysis from nanopore genome sequencing
  ☆51Updated 4 years ago
• Oshlack / Corset
  Software for clustering de novo assembled transcripts and counting overlapping reads
  ☆70Updated 3 years ago
• bergmanlab / mcclintock
  Meta-pipeline to identify transposable element insertions using next generation sequencing data
  ☆96Updated last year
• 10XGenomics / supernova
  10x Genomics Linked-Read Diploid De Novo Assembler
  ☆65Updated 6 years ago
• frankMusacchia / Annocript
  Annocript is a pipeline for the annotation of de-novo generated transcriptomes. It executes BLAST analysis with UniProt, NCBI Conserved …
  ☆54Updated 4 years ago
• dentearl / mafTools
  Bioinformatics tools for dealing with Multiple Alignment Format (MAF) files.
  ☆106Updated 2 years ago
• lfaino / LoReAn
  Long Reads Annotation pipeline
  ☆71Updated 2 years ago
• wurmlab / flo
  Same species annotation lift over pipeline.
  ☆96Updated last year
• PapenfussLab / StructuralVariantAnnotation
  R package designed to simplify structural variant analysis
  ☆72Updated 3 years ago
• nhansen / SVanalyzer
  Tools for the analysis of structural variation in genomes
  ☆78Updated 10 months ago
• tanghaibao / bio-pipeline
  My collection of light bioinformatics analysis pipelines for specific tasks
  ☆72Updated 9 months ago
• brentp / duphold
  don't get DUP'ed or DEL'ed by your putative SVs.
  ☆104Updated 4 years ago
• Magdoll / SQANTI2
  SQANTI2 is now replaced by SQANTI3. Please go to: https://github.com/ConesaLab/SQANTI3
  ☆38Updated 4 years ago
• nanoporetech / pipeline-pinfish-analysis
  Pipeline for annotating genomes using long read transcriptomics data with pinfish
  ☆28Updated 4 years ago
• tobiasrausch / wally
  Wally: Visualization of aligned sequencing reads and contigs
  ☆111Updated 2 months ago
• CshlSiepelLab / phast
  PHAST
  ☆72Updated 2 months ago
• nanoporetech / pinfish
  Tools to annotate genomes using long read transcriptomics data
  ☆45Updated 4 years ago
• KCCG / ClinSV
  Robust detection of clinically relevant structural and copy number variation from whole genome sequencing data
  ☆67Updated 5 months ago
• Trinotate / Trinotate.github.io
  web documentation for Trinotate
  ☆48Updated 2 years ago
• Illumina / Pisces
  Somatic and germline variant caller for amplicon data. Recommended caller for tumor-only workflows.
  ☆96Updated 2 years ago
• parklab / xTea
  Comprehensive TE insertion identification with WGS/WES data from multiple sequencing technics
  ☆104Updated this week
• tao-bioinfo / gff3sort
  GFF3sort: A Perl Script to sort gff3 files and produce suitable results for tabix tools
  ☆48Updated 4 years ago
• tobiasrausch / alfred
  BAM Statistics, Feature Counting and Annotation
  ☆146Updated this week
• guoweilong / cgmaptools
  toolbox for analysing BS-seq data, advance features in SNV, ASM and DMR
  ☆62Updated last year
• ccagc / QDNAseq
  QDNAseq package for Bioconductor
  ☆49Updated 6 months ago