Alternatives and similar repositories for bio-pipeline

Users that are interested in bio-pipeline are comparing it to the libraries listed below

• tanghaibao / allhic
  Genome scaffolding based on HiC data in heterozygous and high ploidy genomes
  ☆60Updated 11 months ago
• sujaikumar / assemblage
  Tools for working with second gen assemblies, fasta sequences, etc
  ☆93Updated 9 years ago
• lfaino / LoReAn
  Long Reads Annotation pipeline
  ☆72Updated 3 years ago
• CshlSiepelLab / phast
  PHAST
  ☆77Updated this week
• wurmlab / flo
  Same species annotation lift over pipeline.
  ☆98Updated 2 years ago
• drostlab / LTRpred
  De novo annotation of young retrotransposons
  ☆48Updated 3 years ago
• ISUgenomics / common_scripts
  my bin directory
  ☆45Updated 3 months ago
• icebert / pblat
  parallelized blat with multi-threads support
  ☆53Updated 11 months ago
• yjx1217 / LRSDAY
  LRSDAY: Long-read Sequencing Data Analysis for Yeasts
  ☆33Updated last year
• genomeannotation / GAG
  Generates an NCBI .tbl file of annotations on a genome.
  ☆68Updated 7 years ago
• ksahlin / isONcorrect
  Error correction of ONT transcript reads
  ☆58Updated 2 years ago
• ListerLab / TEPID
  Transposable element polymorphism identification
  ☆34Updated 5 years ago
• arzwa / wgd
  Python package and CLI for whole-genome duplication related analyses. **This package is deprecated in favor of** https://github.com/heche…
  ☆86Updated 2 years ago
• Nextomics / pipeline-for-isoseq
  A pipeline for isoseq
  ☆23Updated 7 years ago
• clemgoub / dnaPipeTE
  dnaPipeTE (for de-novo assembly & annotation Pipeline for Transposable Elements), is a pipeline designed to find, annotate and quantify T…
  ☆59Updated 2 years ago
• 4ureliek / TEanalysis
  Analysis of TE contribution to features (transcripts or simple features). Includes utils to test enrichment.
  ☆29Updated 6 years ago
• PacificBiosciences / barcoding
  Lima - Demultiplex Barcoded PacBio Samples
  ☆67Updated 7 months ago
• santiagosnchez / vcf2fasta
  Converts a VCF file to a FASTA alignment provided a reference genome and a GFF file
  ☆52Updated 2 weeks ago
• phyloacc / PhyloAcc
  PhyloAcc a software to detect the changes of conservation of a genomic region
  ☆34Updated last month
• wdecoster / nano-snakemake
  A snakemake pipeline for SV analysis from nanopore genome sequencing
  ☆52Updated 5 years ago
• hyphaltip / genome-scripts
  Genome Scripts used in fungal comparative genomics
  ☆66Updated 5 years ago
• Oshlack / Corset
  Software for clustering de novo assembled transcripts and counting overlapping reads
  ☆76Updated 3 years ago
• lh3 / minipileup
  Simple pileup-based variant caller
  ☆95Updated 8 months ago
• phasegenomics / hic_qc
  A (very) simple script to QC Hi-C data.
  ☆26Updated last year
• groupschoof / AHRD
  High throughput protein function annotation with Human Readable Description (HRDs) and Gene Ontology (GO) Terms.
  ☆67Updated 2 years ago
• BGI-shenzhen / BamDeal
  BamDeal: a comprehensive toolkit for bam manipulation
  ☆54Updated 3 years ago
• Ensembl / plant-scripts
  Scripting analyses of genomes in Ensembl Plants
  ☆40Updated this week
• conchoecia / pauvre
  Pauvre: QC and genome browser plotting Oxford Nanopore and PacBio long reads.
  ☆54Updated last year
• EichlerLab / smrtsv2
  Structural variant caller
  ☆55Updated 4 years ago
• tao-bioinfo / gff3sort
  GFF3sort: A Perl Script to sort gff3 files and produce suitable results for tabix tools
  ☆51Updated 5 years ago