lab_thresholds: Grounds for excluding a sample based on lab measures
In 3inar/nowaclean: Methods for Standardized Data Cleaning in the Norwegian Women and Cancer Group
Description
We have several quality control measurements from the lab; when we are
uncertain whether an array looks bad we can inspect these measures and
get a sense of whether something has gone wrong. We use these cutoffs to
say that an array has gone wrong:
RIN < 7: An array with RIN less than 7 is considered bad.
260/280 RNA ratio < 2: An array with 260/280 less than 2 is considered bad.
260/230 RNA ratio < 1.7: An array with 260/230 less than 1.7 is considered bad.
Ng/ul RNA outside of (50, 500): Well-behaved arrays should have
50 < Ng/ul RNA < 500.
NB that perfectly well-behaved arrays might have lab measures outside
of these limits, we never exclude arrays based only on lab measures.
Usage
1
Format
An object of class character of length 4.
3inar/nowaclean documentation built on May 5, 2019, 10:44 a.m.
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Description
We have several quality control measurements from the lab; when we are uncertain whether an array looks bad we can inspect these measures and get a sense of whether something has gone wrong. We use these cutoffs to say that an array has gone wrong:
RIN < 7: An array with RIN less than 7 is considered bad.
260/280 RNA ratio < 2: An array with 260/280 less than 2 is considered bad.
260/230 RNA ratio < 1.7: An array with 260/230 less than 1.7 is considered bad.
Ng/ul RNA outside of (50, 500): Well-behaved arrays should have 50 < Ng/ul RNA < 500.
NB that perfectly well-behaved arrays might have lab measures outside of these limits, we never exclude arrays based only on lab measures.
Usage
1 |
Format
An object of class character of length 4.
R Package Documentation
Browse R Packages
We want your feedback!
Note that we can't provide technical support on individual packages. You should contact the package authors for that.
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