grch38-self-chain-ucsc-v1¶
Self chain alignemnts of the human genome with an improved gap scoring system. Alignemtns point out areas of duplication wihtin the human genome, with the exception of the pseudoautosomal regions on X and Y. From the Human Chained Self Alignemnts track on UCSC. Remapped from UCSC hg38 to Ensembl GRCh37
GGD Package |
grch38-self-chain-ucsc-v1 |
Species |
Homo_sapiens |
Genome Build |
GRCh38 |
GGD Channel |
ggd-genomics |
Package Version |
1 |
Recipe Author |
mjc |
Data Provider |
UCSC |
Data Version |
06-Mar-2014 |
Genomic File Type |
bed |
Data file coordinate basing |
0-based-inclusive |
Package’s Data Files |
grch38-self-chain-ucsc-v1.bed.gz, grch38-self-chain-ucsc-v1.bed.gz.tbi |
Approximate Size of Each Data File |
grch38-self-chain-ucsc-v1.bed.gz: 790.34M, grch38-self-chain-ucsc-v1.bed.gz.tbi: 700.77K |
Package Keywords |
Self-Chain, Self-Alignment, Repeats, low-copy-repeats |
Package Dependencies: |
grch38-chrom-mapping-ucsc2ensembl-ncbi-v1, gsort, htslib, zlib |
Recipe |
Install with --prefix
¶
Prefix install enabled: True
Installation¶
With ggd installed and an activated ggd channel (see Using GGD), install with:
ggd install -c genomics grch38-self-chain-ucsc-v1
Activating Environment Variables¶
Run source activate base
after installing the data package to activate the environment variables
associated with this data package.
Note
You must be in the conda environment where the data package was installed in order to use the
associated environment variables. Otherwise, use ggd get-files
to access this package’s
data files.