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nevromenevrome
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Merge pull request #51 from poseidon-framework/poseidon26
Poseidon v2.6.0
2 parents 9ea7766 + 1bccbd0 commit 653f81f

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‎POSEIDON_yml_fields.tsv‎

Lines changed: 25 additions & 24 deletions
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@@ -1,24 +1,25 @@
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field level parent description type format mandatory unique
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poseidonVersion 0 Poseidon package format version (e.g. 2.0.1) String TRUE TRUE
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title 0 title of the package String TRUE TRUE
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description 0 some descriptive words about the package String FALSE TRUE
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contributor 0 list of contributors to the package (not the data producer/publication author, but the Poseidon package creator), each with name and email Array TRUE TRUE
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name 1 contributor name of one contributor String TRUE FALSE
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email 1 contributor email of one contributor (must be a valid email address) String Email TRUE FALSE
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packageVersion 0 version of the package (should be changed/incremented when the package is changed) String TRUE TRUE
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lastModified 0 date of last modification of the Poseidon package (should be updated when the package is changed) Date YYYY-MM-DD TRUE TRUE
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genotypeData 0 genotype file name section TRUE TRUE
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format 1 genotypeData file format definition, allows EIGENSTRAT and PLINK String TRUE TRUE
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genoFile 1 genotypeData relative path to genoFile String Path TRUE TRUE
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genoFileChkSum 1 genotypeData md5 checksum of the genoFile String FALSE TRUE
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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) FALSE 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
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bibFileChkSum 1 genotypeData md5 checksum of the bibFile String FALSE TRUE
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readmeFile 0 relative path to readmeFile String Path FALSE TRUE
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changelogFile 0 relative path to changelogFile String Path FALSE TRUE
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field level parent description type format mandatory
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poseidonVersion 0 Poseidon package format version (e.g. 2.0.1) String TRUE
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title 0 title of the package String TRUE
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description 0 some descriptive words about the package String FALSE
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contributor 0 list of contributors to the package (not publication author, but the Poseidon package creator) Array FALSE
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name 1 contributor name of one contributor String TRUE
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email 1 contributor email of one contributor (must be a valid email address) String Email TRUE
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orcid 1 contributor orcid of one contributor (must be a valid orcid) String ORCID FALSE
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packageVersion 0 version of the package (should be changed/incremented when the package is changed) String TRUE
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lastModified 0 date of last modification of the Poseidon package (should be updated when the package is changed) Date YYYY-MM-DD FALSE
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genotypeData 0 genotype file name section TRUE
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format 1 genotypeData file format definition, allows EIGENSTRAT and PLINK String TRUE
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genoFile 1 genotypeData relative path to genoFile String Path TRUE
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genoFileChkSum 1 genotypeData md5 checksum of the genoFile String FALSE
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snpFile 1 genotypeData relative path to snpFile String Path TRUE
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snpFileChkSum 1 genotypeData md5 checksum of the snpFile String FALSE
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indFile 1 genotypeData relative path to indFile String Path TRUE
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indFileChkSum 1 genotypeData md5 checksum of the indFile String 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) FALSE
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jannoFile 0 relative path to jannoFile String Path FALSE
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jannoFileChkSum 1 genotypeData md5 checksum of the jannoFile String FALSE
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bibFile 0 relative path to bibFile String Path FALSE
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bibFileChkSum 1 genotypeData md5 checksum of the bibFile String FALSE
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readmeFile 0 relative path to readmeFile String Path FALSE
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changelogFile 0 relative path to changelogFile String Path FALSE

‎janno_columns.tsv‎

Lines changed: 1 addition & 1 deletion
Original file line numberDiff line numberDiff line change
@@ -25,7 +25,7 @@ MT_Haplogroup mitochondrial haplogroup after phylotree.org as reported by Haplof
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Y_Haplogroup Y-chromosome haplogroup reported as published, for internal data, please follow syntax with main branch + most terminal derived Y-SNP (e.g. R1b-P312) String FALSE FALSE FALSE FALSE FALSE
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Source_Tissue skeletal/tissue/source elements, specific bone name should be reported with an underscore (e.g. bone_phalanx), multiple values separated by ; in case of multiple libraries String TRUE FALSE FALSE FALSE FALSE
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Nr_Libraries number of libraries Integer FALSE FALSE FALSE FALSE FALSE
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Capture_Type specifics of data generation method, multiple values separated by ; String TRUE TRUE FALSE Shotgun;1240K;OtherCapture;ReferenceGenome FALSE FALSE
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Capture_Type specifics of data generation method, multiple values separated by ; String TRUE TRUE FALSE Shotgun;1240K;ArborComplete;ArborPrimePlus;ArborAncestralPlus;TwistAncientDNA;OtherCapture;ReferenceGenome FALSE FALSE
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UDG “mixed” in case multiple libraries with different UDG treatment were merged String FALSE TRUE FALSE minus;half;plus;mixed FALSE FALSE
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Library_Built “ds” for double stranded, “ss” for single stranded, “mixed” in case multiple libraries with different protocols were merged String FALSE TRUE FALSE ds;ss;other FALSE FALSE
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Genotype_Ploidy ploidy of the genotypes String FALSE TRUE FALSE diploid;haploid FALSE FALSE

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