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changes_v1.1_to_v1.2.txt
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Changes between RDML v1.1 to v 1.2
- sampleType
annotation: New element occurring 0 to unlimited times
This element has two subelements, property and value, both strings.
It should be used to annotate the properties of samples.
templateRNAQuality: Element was removed
Use the annotation element instead.
templateDNAQuality: Element was removed
Use the annotation element instead.
templateRNAQuantity: Element was removed
Use the templateQuantity element instead.
templateDNAQuantity: Element was removed
Use the templateQuantity element instead.
templateQuantity: New optional element
Use this element to define the nucleotide concentration of
the template.
It has the subelements:
- conc
Concentration of the template in nanogram per microliter in the
final reaction mix.
- nucleotide
The type of nucleotide used as template. Possible values are genomic DNA,
cDNA, DNA, RNA.
- targetType
amplificationEfficiencySE: New optional element
The standard error of the value provided in "amplificationEfficiency"
should be given.
- dataType
bgFluorSlp: New optional element
This element contains the slope of the baseline function.
Background fluorescence slope - The slope of the baseline trend
based on the estimated background fluorescence. The element should
be absent to indicate a slope of 0.0; If this element is present
without the bgFluor element it should be ignored.
-----------------------------------------------------------------------------
Clarifications of existing elements without functional changes:
- sampleType
quantity:
Quantity - The reference quantity of this sample. It should be only used if the
sample is part of a standard curve. The provided value will be used to quantify
unknown samples in absolute quantification assays.
Only the use of true numbers is valid like 1, 10, 100, 1000 or 1, 0.1, 0.01,
0.001. The use of exponents is not valid like 1, 2, 3, 4 or -1, -2, -3, -4
because it will not be interpreted as 10E1, 10E2, 10E3, 10E4 or 10E-1, 10E-2,
10E-3, 10E-4.
- targetType
A target is a defined PCR reaction. PCR reactions for the same gene
which differ in primer sequences are considered different targets.
- dataType
bgFluor: Clarification of the documentation:
Background fluorescence - The y-intercept of the baseline trend
based on the estimated background fluorescence.
excl: Clarification of the documentation:
Excluded - If present, this entry should not be evaluated. Do not set
this element to false if this entry is valid, leave the entire
element out instead.
It may contain a string with reason for exclusion. Several reasons
for exclusion should be separated by semicolons ";".
dpAmpCurveType / dpMeltingCurveType // fluor: Clarification of the documentation:
Fluorescence - The fluorescence intensity measured without any correction.
The fluorescence intensity must not be baseline corrected.
- idType
Clarification of the documentation: A ID must be at least one
character and unique. The id should be a human readable short name as
it was provided by the user.
- targetType
amplificationEfficiency: Clarification of the documentation:
Amplification efficiency should be given as the fold-increase of DNA
per cycle (the base of the exponential function), for example 1.95
for 95% efficiency.