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1240K instead of 1240k in the snpSet field
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POSEIDON_yml_fields.tsv

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@@ -15,7 +15,7 @@ snpFile 1 genotypeData relative path to snpFile String Path TRUE TRUE
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snpFileChkSum 1 genotypeData md5 checksum of the snpFile String FALSE TRUE
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indFile 1 genotypeData relative path to indFile String Path TRUE TRUE
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indFileChkSum 1 genotypeData md5 checksum of the indFile String FALSE TRUE
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snpSet 1 genotypeData Can be either "1240k", "HumanOrigins" or "Other" depending on the list of SNPs used. String (1240k|HumanOrigins|Other) TRUE FALSE
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snpSet 1 genotypeData Can be either 1240K, HumanOrigins or Other depending on the list of SNPs used String (1240K|HumanOrigins|Other) TRUE FALSE
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jannoFile 0 relative path to jannoFile String Path FALSE TRUE
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jannoFileChkSum 1 genotypeData md5 checksum of the jannoFile String FALSE TRUE
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bibFile 0 relative path to bibFile String Path FALSE TRUE

README.md

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@@ -43,7 +43,7 @@ The `POSEIDON.yml` file lists relative file paths and metainformation in a stand
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Example:
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```
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poseidonVersion: 2.0.2
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poseidonVersion: 2.3.1
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title: Switzerland_LNBA_Roswita
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description: LNBA Switzerland genetic data not yet published # optional
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contributor:
@@ -61,7 +61,7 @@ genotypeData:
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snpFileChkSum: 6771d7c873219039ba3d5bdd96031ce3 # optional
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indFile: Switzerland_LNBA_Roswita.fam
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indFileChkSum: f77dc756666dbfef3bb35191ae15a167 # optional
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snpset: 1240k
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snpSet: 1240K
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jannoFile : Switzerland_LNBA_Roswita.janno
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jannoFileChkSum: 555d7733135ebcabd032d581381c5d6f # optional
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bibFile: sources.bib
@@ -82,7 +82,7 @@ Genotype data in Poseidon packages is stored either in PLINK (binary) or EIGENST
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| SNP file | [`.bim` (extended MAP file)](https://www.cog-genomics.org/plink/1.9/formats#bim) | [`.snp` (snp file)](https://github.com/DReichLab/EIG/blob/fb4fb59065055d3622e0f97f0149588eae630a3e/CONVERTF/README#L67) |
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| individual file | [`.fam` (sample information)](https://www.cog-genomics.org/plink/1.9/formats#fam) | [`.ind` (indiv file)](https://github.com/DReichLab/EIG/blob/fb4fb59065055d3622e0f97f0149588eae630a3e/CONVERTF/README#L67) |
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In addition to these files and their checksums, you also must provide a `snpset` entry which determines the shape of the genotype file. Currently, only `1240k`, `HumanOrigins` or `Other` are allowed.
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In addition to these files and their checksums, you also must provide a `snpSet` entry which determines the shape of the genotype file. Currently, only `1240K`, `HumanOrigins` or `Other` are allowed.
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## The `.janno` file
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