{"items":[{"name":"fasta","version":"0.0.1","description":"Sequences in the FASTA format, indexed FASTA (produced with samtools index) and chromosome sizes file","id":1},{"name":"abundant_sequences","version":"0.0.1","description":"Abundant sequences in the FASTA format -- PhiX spike-in, Poly(A), Poly(C) and adapter sequences","id":2},{"name":"bed","version":"0.0.1","description":"Genomic feature annotations asset which provides access to all annotated transcripts in BED format","id":3},{"name":"bismark_bt1_index","version":"0.0.1","description":"Genome index for Bisulfite-Seq applications, produced by bismark_genome_preparation using bowtie1","id":4},{"name":"bismark_bt2_index","version":"0.0.1","description":"Genome index for Bisulfite-Seq applications, produced by bismark_genome_preparation using bowtie2","id":5},{"name":"blacklist","version":"0.0.1","description":"Atypical, unstructured, or high signal genomic regions present in next-generation sequencing experiments (e.g. from ENCODE)","id":6},{"name":"bowtie1_index","version":"0.0.1","description":"Genome index for bowtie1, produced with bowtie-build","id":7},{"name":"bowtie2_index","version":"0.0.1","description":"Genome index for bowtie2, produced with bowtie2-build","id":8},{"name":"bwa_index","version":"0.0.1","description":"Genome index for Burrows-Wheeler Alignment Tool, produced with bwa index","id":9},{"name":"cellranger_reference","version":"0.0.1","description":"Cell Ranger custom genome reference for read alignment and gene expression quantification","id":10},{"name":"dbnsfp","version":"0.0.1","description":"A database developed for functional prediction and annotation of all potential non-synonymous single-nucleotide variants (nsSNVs) in the human genome (Gencode release 29/Ensembl 94)","id":11},{"name":"dbsnp","version":"0.0.1","description":"The database of single nucleotide polymorphisms (SNPs) and multiple small-scale variations that include insertions/deletions, microsatellites, and non-polymorphic variants","id":12},{"name":"ensembl_rb","version":"0.0.1","description":"A regulatory annotation file","id":13},{"name":"epilog_index","version":"0.0.1","description":"Genome index for CpG sites, produced by the epilog DNA methylation caller","id":14},{"name":"feat_annotation","version":"0.0.1","description":"Combined genomic feature annotation created using an Ensembl GTF annotation asset and an Ensembl regulatory build annotation asset","id":15},{"name":"gtf","version":"0.0.1","description":"GTF annotation asset which provides access to all annotated transcripts","id":16},{"name":"hisat2_index","version":"0.0.1","description":"Genome index for HISAT2, produced with hisat2-build","id":17},{"name":"kallisto_index","version":"0.0.1","description":"Genome index for kallisto, produced with kallisto index","id":18},{"name":"refgene_anno","version":"0.0.1","description":"gene, TSS, exon, intron, and premature mRNA annotation files","id":19},{"name":"salmon_index","version":"0.0.1","description":"Transcriptome index for salmon, produced with salmon index","id":20},{"name":"salmon_partial_sa_index","version":"0.0.1","description":"Transcriptome index for salmon, produced with salmon index using partial selective alignment method. Preparation includes transcriptome mapping to the genome and extraction of the relevant portion out from the genome and indexing it along with the transcriptome. Recipe source -- https://github.com/COMBINE-lab/SalmonTools/blob/master/scripts/generateDecoyTranscriptome.sh","id":21},{"name":"salmon_sa_index","version":"0.0.1","description":"Transcriptome index for salmon, produced with salmon index using selective alignment method. Improves quantification accuracy compared to the regular index.","id":22},{"name":"small_rna","version":"0.0.1","description":"Small RNA sequences in the FASTA format. A predicted hairpin portion of a miRNA transcript and information on the location and sequence of the mature miRNA sequence","id":23},{"name":"star_index","version":"0.0.1","description":"Genome index for STAR RNA-seq aligner, produced with STAR --runMode genomeGenerate","id":24},{"name":"suffixerator_index","version":"0.0.1","description":"Enhanced suffix array index for genomes using gt (GenomeTools) suffixerator program","id":25},{"name":"tallymer_index","version":"0.0.1","description":"Indexed k-mers for a given enhanced suffix array at a fixed value of k","id":26},{"name":"tgMap","version":"0.0.1","description":"Transcript to gene map file, containing two columns mapping of each transcript present in the reference to the corresponding gene.","id":27}],"pagination":{"offset":0,"limit":100,"total":27}}