Alternatives and similar repositories for graph_annotation

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

• yunwilliamyu / quartz
  ☆15Updated 9 years ago
• kundajelab / genomelake
  Simple and efficient access to genomic data for deep learning models.
  ☆43Updated 5 years ago
• jbloomlab / alignparse
  Align sequences and then parse features.
  ☆18Updated 2 months ago
• brentp / fishers_exact_test
  Fishers Exact Test for Python (Cython)
  ☆65Updated 3 months ago
• brentp / hts-python
  pythonic wrapper for libhts (moved to: https://github.com/quinlan-lab/hts-python)
  ☆49Updated 8 years ago
• RWilton / Arioc
  Arioc: GPU-accelerated DNA short-read alignment
  ☆70Updated last month
• apierleoni / BioGraPy
  Biological Graphic tool in Python
  ☆34Updated 5 years ago
• evoldoers / machineboss
  Bioinformatics Open Source Sequence machine
  ☆33Updated last year
• dkoslicki / CMash
  Fast and accurate set similarity estimation via containment min hash
  ☆42Updated 11 months ago
• pinellolab / GRAFIMO
  GRAph-based Finding of Individual Motif Occurrences
  ☆31Updated 9 months ago
• PMBio / warpedLMM
  ☆21Updated 10 years ago
• BenLangmead / qtip
  Qtip: a tandem simulation approach for accurately predicting read alignment mapping qualities
  ☆25Updated 5 years ago
• richarddurbin / modimizer
  a toolset for fast DNA read set matching and assembly using a new type of reduced kmer
  ☆37Updated 3 years ago
• HingeAssembler / HINGE
  Software accompanying "HINGE: Long-Read Assembly Achieves Optimal Repeat Resolution"
  ☆64Updated 4 years ago
• TravisWheelerLab / AvxWindowFmIndex
  A fast, AVX2 and ARM Neon accelerated FM index library
  ☆32Updated 6 months ago
• quinlan-lab / pathoscore
  pathoscore evaluates variant pathogenicity tools and scores.
  ☆21Updated 3 years ago
• metalhelix / pipette
  variant discovery and annotation using GATK and Ensembl
  ☆17Updated 11 years ago
• cdarby / samovar
  Somatic (mosaic) SNV caller for 10X Genomics data using random forest classification and feature-based filters
  ☆24Updated 6 years ago
• BoevaLab / SV-Bay
  Detection of structural variants in cancer mate-pair and paired-end data
  ☆12Updated 6 years ago
• pmelsted / KmerStream
  Streaming algorithm for computing kmer statistics for massive genomics datasets
  ☆54Updated 5 years ago
• karel-brinda / ococo
  Ococo: the first online variant and consensus caller. Call genomic consensus directly from an unsorted SAM/BAM stream.
  ☆47Updated 6 years ago
• staciawyman / blender
  This BLENDER has been sunsetted
  ☆16Updated 8 months ago
• COMBINE-lab / pufferfish
  An efficient index for the colored, compacted, de Bruijn graph
  ☆110Updated 8 months ago
• LUMC / kPAL
  Analysis toolkit and programming library for k-mer profiles
  ☆31Updated 4 years ago
• mateidavid / fast5
  A C++ header-only library for reading Oxford Nanopore Fast5 files
  ☆53Updated 2 years ago
• DaehwanKimLab / hisat
  Fast spliced aligner with low memory requirements
  ☆41Updated 9 years ago
• medvedevgroup / varmatch
  robust matching of small variant datasets using flexible scoring schemes
  ☆10Updated 5 years ago
• tbrown91 / SimBac
  Source code for SimBac, a bacterial genome simulator
  ☆13Updated 9 months ago
• Kingsford-Group / splitsbt
  ☆18Updated 6 years ago
• broadinstitute / pyfrost
  Python bindings for Bifrost's compacted colored de Bruijn Graph with a NetworkX-compatible API
  ☆28Updated last year