Aliases: hg19
Digest: baa91c8f6e2780cfd8fd1040ff37f51c379947a2a4820d6c
Description: The GRCh37 reference sequence from UCSC
Assets table
| download | asset name:tag | asset description | asset/archive size | archive digest |
|---|---|---|---|---|
| bismark_bt2_index:default | Genome index for Bisulfite-Seq applications, produced by bismark_genome_preparation using bowtie2 | 13.6GB / 15.9GB |
6617c619c9ab75ac8dc0af7e71931842
|
|
| bowtie2_index:default | Genome index for bowtie, produced with bowtie-build | 3.8GB / 3.5GB |
bfe29f70c26f6ab10089e7e8865c6ace
|
|
| bwa_index:default | Genome index for Burrows-Wheeler Alignment Tool, produced with bwa index | 5.1GB / 3.2GB |
0843b3190c6bc57369bf3056b3e5104a
|
|
| cellranger_reference:default | Cell Ranger custom genome reference for read alignment and gene expression quantification | 18.4GB / 10.7GB |
4f05306bbdd4d5f3ab9d4ca79c963c04
|
|
| dbsnp:default | The database of single nucleotide polymorphisms (SNPs) and multiple small-scale variations that include insertions/deletions, microsatellites, and non-polymorphic variants | 1.5GB / 1.5GB |
e32f9a6ee8382a975648b35f4cf59bf1
|
|
| ensembl_gtf:default | Ensembl GTF, TSS, and gene body annotation | 51.3MB / 42.5MB |
6cf20964f3f01ee9e7cb025b0aaa559b
|
|
| ensembl_rb:default | A regulatory annotation file | 8.8MB / 8.1MB |
0d8ab27b19ddde4afa9db5528b8d4c9d
|
|
| fasta:default | DNA sequences in the FASTA format, indexed FASTA (produced with samtools index) and chromosome sizes file | 3.0GB / 905.3MB |
80cef56fafce40329d9fb7784e12ac24
|
|
| fasta_txome:default | cDNA sequences in the FASTA format, indexed FASTA (produced with samtools index) and chromosome sizes file | 315.1MB / 60.7MB |
9727d295f5e88426d228257870413006
|
|
| gencode_gtf:default | GTF annotation asset which provides access to all annotated transcripts which make up an Ensembl gene set. | 53.9MB / 52.3MB |
d24d49d38b6837a2a9c8e5f529dc274e
|
|
| hisat2_index:default | Genome index for HISAT2, produced with hisat2-build | 4.1GB / 3.9GB |
9215afeb02e7f1bafd0a3a7d9dc4c68a
|
|
| refgene_anno:default | gene, TSS, exon, intron, and premature mRNA annotation files | 25.3MB / 12.7MB |
f15cf15cc869e6151275ee8e62d82ea1
|
|
| salmon_partial_sa_index:default | 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 | 2.4GB / 879.5MB |
c256c89cfba22973f1e9b96cc59328aa
|
|
| salmon_sa_index:default | Transcriptome index for salmon, produced with salmon index using selective alignment method. Improves quantification accuracy compared to the regular index. | 16.5GB / 14.3GB |
3ef461fb786454741ab3fa17ad018092
|
|
| star_index:default | Genome index for STAR RNA-seq aligner, produced with STAR --runMode genomeGenerate | 26.7GB / 48.0GB |
4f029dfec175fd3390b2a4ded3238ddd
|
|
| suffixerator_index:default | Enhanced suffix array index for genomes using gt (GenomeTools) suffixerator program | 27.6GB / 15.9GB |
3c2e313faf57c218ea1443b5212e968a
|
|
| tgMap:default | Transcript to gene map file, containing two columns mapping of each transcript present in the reference to the corresponding gene. | 2.8MB / 623.1KB |
0e13fa69a4510fda2d0c1cabed5c98f7
|