Commit c55d8e63 authored by npappas's avatar npappas

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parent 79d45590
Data
====
Put raw input files and other large static dependencies (e.g. custom genome reference, annotation files) here.
# Taxonomy
All big files better to be handled as git annex objects. Please refer to https://git.lumc.nl/sasc/project_template/wikis/home for how to work with git annex.
Downloaded on 17/10/2018.
Contains the taxdump files (nodes.dmp and names.dmp are necessary).
# external_sets
Query used
https://www.ncbi.nlm.nih.gov/nuccore/?term=(NT_000001%3ANT_999999%5Bpacc%5D+OR+NW_000001%3ANW_999999%5Bpacc%5D)+AND+nuccore_comp_nuccore%5Bfilter%5D
Manually download the summary returned from NCBI.
# Library
## release90
### library
Downloaded on 17/10/2018.
Contains all _raw_ fasta files, per domain. Do not change this.
Domains included:
- archaea
- bacteria
- fungi
- invertebrate
- protozoa
- plant
- vertebrate_mammalian
- viral
Folder structure can be either flat or hierarchical depending on the project setup. However, the sample sheet in ../Doc folder should specify explicitly the meaning of each input file.
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