Commit b354da20 authored by Vidjil Team's avatar Vidjil Team Committed by Mathieu Giraud
Browse files

doc/format-analysis.org: numerical values

parent e6f52538
...@@ -297,7 +297,7 @@ In the =.analysis= file, this section is intended to describe some specific clon ...@@ -297,7 +297,7 @@ In the =.analysis= file, this section is intended to describe some specific clon
// this will create a normalization option in the // this will create a normalization option in the
// settings web application menu // settings web application menu
"seg": // detailed V(D)J designation/segmentation and other sequences features [optional] "seg": // detailed V(D)J designation/segmentation and other sequences features or values [optional]
// on the web application, clones that are not segmented will be shown on the grid with '?/?' // on the web application, clones that are not segmented will be shown on the grid with '?/?'
// positions are related to the 'sequence' // positions are related to the 'sequence'
// names of V/D/J genes should match the ones in files referenced in germline/germline.data // names of V/D/J genes should match the ones in files referenced in germline/germline.data
...@@ -309,11 +309,16 @@ In the =.analysis= file, this section is intended to describe some specific clon ...@@ -309,11 +309,16 @@ In the =.analysis= file, this section is intended to describe some specific clon
"3": {"name": "IGHJ3*02", "start": 136, "stop": 171}, // J (or 3') segment "3": {"name": "IGHJ3*02", "start": 136, "stop": 171}, // J (or 3') segment
// any feature to be highlighted in the sequence // any feature to be highlighted in the sequence
// the optional "seq" element gives a sequence that corresponds to this feature // the optional "seq" element gives a sequence that corresponds to this feature,
// and the optional "val" element gives a numerical value.
// JUNCTION//CDR3 should be stored that way (in fields called "junction" of "cdr3"), // JUNCTION//CDR3 should be stored that way (in fields called "junction" of "cdr3"),
// its productivity must be stored in a boolean field called "productive". // its productivity must be stored in a boolean field called "productive".
// Positions also start at 1. // Positions also start at 1.
"somefeature": { "start": 56, "stop": 61, "seq": "ACTGTA" } "somefeature": { "start": 56, "stop": 61, "seq": "ACTGTA", "val": 145.7 },
// Numerical features concerning all the sequence or its analysis (such as 'evalue')
// can be provided by omitting "start" and "stop" elements.
"someotherfeature": {"val": 0.004521},
} }
......
Markdown is supported
0% or .
You are about to add 0 people to the discussion. Proceed with caution.
Finish editing this message first!
Please register or to comment