Alternatives and similar repositories for Sequence-manipulation

Users that are interested in Sequence-manipulation are comparing it to the libraries listed below

• genomeannotation / GAG
  Generates an NCBI .tbl file of annotations on a genome.
  ☆68Updated 7 years ago
• veg / hyphy-analyses
  HyPhy standalone analyses
  ☆46Updated last week
• LANL-Bioinformatics / PhaME
  Given a reference, PhaME extracts SNPs from complete genomes, draft genomes and/or reads. Uses SNP multiple sequence alignment to constr…
  ☆33Updated last year
• sanger-pathogens / assembly_improvement
  Improve the quality of a denovo assembly by scaffolding and gap filling
  ☆56Updated 4 years ago
• rhysf / Synima
  Synteny Imager
  ☆64Updated last month
• johnssproul / RepeatProfiler
  ☆26Updated 6 months ago
• xfengnefx / hifiasm-meta
  hifiasm_meta - de novo metagenome assembler, based on hifiasm, a haplotype-resolved de novo assembler for PacBio Hifi reads.
  ☆68Updated last month
• ddarriba / prottest3
  Automatically exported from code.google.com/p/prottest3
  ☆37Updated 7 years ago
• AliTVTeam / AliTV
  Visualize whole genome alignments as linear maps
  ☆73Updated 3 weeks ago
• ridgelab / JustOrthologs
  ☆35Updated 2 years ago
• rki-mf1 / clean
  A nextflow pipeline for decontamination of short reads, long reads and contigs
  ☆53Updated 2 months ago
• mscampbell / Genome_annotation
  These are scripts that I use frequently in genome annotation projects. Some of them have evolved awkwardly so the code is difficult to fo…
  ☆16Updated 7 years ago
• cboursnell / crb-blast
  Conditional Reciprocal Best Blast
  ☆41Updated 8 years ago
• dwinter / pafr
  Read, manipulate and visualize 'Pairwise mApping Format' data in R
  ☆74Updated 4 years ago
• KamilSJaron / k-mer-approaches-for-biodiversity-genomics
  k-mer learning materials
  ☆74Updated 6 months ago
• irycisBioinfo / PATO
  PATO is a R package designed to analyze pangenomes (set of genomes) intra or inter species.
  ☆61Updated last year
• groupschoof / AHRD
  High throughput protein function annotation with Human Readable Description (HRDs) and Gene Ontology (GO) Terms.
  ☆67Updated 2 years ago
• jeffersonfparil / compare_genomes
  A comparative genomics workflow using Nextflow, conda, Julia and R
  ☆45Updated last year
• UCSC-LoweLab / tRNAscan-SE
  A program for detection of tRNA genes
  ☆67Updated 2 years ago
• lauguma / GWideCodeML
  A Python package for testing evolutionary hypotheses in genome-wide approaches.
  ☆31Updated 4 years ago
• clemgoub / dnaPipeTE
  dnaPipeTE (for de-novo assembly & annotation Pipeline for Transposable Elements), is a pipeline designed to find, annotate and quantify T…
  ☆58Updated 2 years ago
• mrmckain / Fast-Plast
  Automated de novo assembly of whole chloroplast genomes.
  ☆47Updated 11 months ago
• akcorut / kGWASflow
  kGWASflow is a Snakemake workflow for performing k-mers-based GWAS.
  ☆39Updated last year
• phasegenomics / hic_qc
  A (very) simple script to QC Hi-C data.
  ☆26Updated 8 months ago
• HuffordLab / GenomeQC
  ☆32Updated 4 years ago
• drostlab / LTRpred
  De novo annotation of young retrotransposons
  ☆48Updated 3 years ago
• evolbioinfo / booster
  ☆27Updated 5 years ago
• clwgg / nQuire
  A statistical framework for ploidy estimation using NGS short-read data
  ☆60Updated 7 years ago
• hillerlab / ForwardGenomics
  Methods for finding associations between phenotypic and genomic differences between species using the Forward Genomics framework
  ☆24Updated 2 years ago
• NGSEP / NGSEPcore
  NGSEP is an integrated framework for analysis of short and long DNA high throughput sequencing reads. A complete list of functionalities …
  ☆55Updated last week