Index

H. sapiens

  • GRCh38
  • genomehttps://cloud.biohpc.swmed.edu/index.php/s/grch38/download
    genome_snphttps://cloud.biohpc.swmed.edu/index.php/s/grch38_snp/download
    genome_tranhttps://cloud.biohpc.swmed.edu/index.php/s/grch38_tran/download
    genome_snp_tranhttps://cloud.biohpc.swmed.edu/index.php/s/grch38_snp_tran/download
  • UCSC hg38
  • genomehttps://cloud.biohpc.swmed.edu/index.php/s/hg38/download
    genome_tranhttps://cloud.biohpc.swmed.edu/index.php/s/hg38_tran/download
  • GRCh37
  • genomehttps://cloud.biohpc.swmed.edu/index.php/s/grch37/download
    genome_snphttps://cloud.biohpc.swmed.edu/index.php/s/grch37_snp/download
    genome_tranhttps://cloud.biohpc.swmed.edu/index.php/s/grch37_tran/download
    genome_snp_tranhttps://cloud.biohpc.swmed.edu/index.php/s/grch37_snp_tran/download
  • UCSC hg19
  • genomehttps://cloud.biohpc.swmed.edu/index.php/s/hg19/download

    M. musculus

  • GRCm38
  • genomehttps://cloud.biohpc.swmed.edu/index.php/s/grcm38/download
    genome_snphttps://cloud.biohpc.swmed.edu/index.php/s/grcm38_snp/download
    genome_tranhttps://cloud.biohpc.swmed.edu/index.php/s/grcm38_tran/download
    genome_snp_tranhttps://cloud.biohpc.swmed.edu/index.php/s/grcm38_snp_tran/download
  • UCSC mm10
  • genomehttps://cloud.biohpc.swmed.edu/index.php/s/mm10/download

    R. norvegicus

  • UCSC rn6
  • genomehttps://cloud.biohpc.swmed.edu/index.php/s/rn6/download

    D. melanogaster

  • BDGP6
  • genomeftp://ftp.ccb.jhu.edu/pub/infphilo/hisat2/data/bdgp6.tar.gz
    genome_tranftp://ftp.ccb.jhu.edu/pub/infphilo/hisat2/data/bdgp6_tran.tar.gz
  • UCSC dm6
  • genomeftp://ftp.ccb.jhu.edu/pub/infphilo/hisat2/data/dm6.tar.gz

    C. elegans

  • WBcel235
  • genomeftp://ftp.ccb.jhu.edu/pub/infphilo/hisat2/data/wbcel235.tar.gz
    genome_tranftp://ftp.ccb.jhu.edu/pub/infphilo/hisat2/data/wbcel235_tran.tar.gz
  • UCSC ce10
  • genomeftp://ftp.ccb.jhu.edu/pub/infphilo/hisat2/data/ce10.tar.gz

    S. cerevisiae

  • R64-1-1
  • genomeftp://ftp.ccb.jhu.edu/pub/infphilo/hisat2/data/r64.tar.gz
    genome_tranftp://ftp.ccb.jhu.edu/pub/infphilo/hisat2/data/r64_tran.tar.gz
  • UCSC sacCer3
  • genomeftp://ftp.ccb.jhu.edu/pub/infphilo/hisat2/data/sc3.tar.gz
    genome: HISAT2 index for reference
    genome_snp: HISAT2 Graph index for reference plus SNPs
    genome_tran: HISAT2 Graph index for reference plus transcripts
    genome_snp_tran: HISAT2 Graph index for reference plus SNPs and transcripts
    

    Binaries

    Version: HISAT2 2.1.0

    Release Date: 6/8/2017
    Sourcehttps://cloud.biohpc.swmed.edu/index.php/s/hisat2-210-source/download
    OSX_x86_64https://cloud.biohpc.swmed.edu/index.php/s/hisat2-210-OSX_x86_64/download
    Linux_x86_64https://cloud.biohpc.swmed.edu/index.php/s/hisat2-210-Linux_x86_64/download
    Windowshttp://www.di.fc.ul.pt/~afalcao/hisat2_windows.html