efischer/BiGpairSEQ
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update readme

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eugenefischer
2022-09-28 23:01:59 -05:00
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@@ -204,6 +204,7 @@ Options for creating a Graph/Data file:
* The read depth (number of times each sequence is read) * The read depth (number of times each sequence is read)
* The read error rate (probability a sequence is misread) * The read error rate (probability a sequence is misread)
* The error collision rate (probability two misreads produce the same spurious sequence) * The error collision rate (probability two misreads produce the same spurious sequence)
* The real sequence collision rate (probability that a misread will produce a different, real sequence from the sample plate. Only applies to new misreads; once an error of this type has occurred, it's likelihood of ocurring again is dominated by the error collision probability.)
These files do not have a human-readable structure, and are not portable to other programs. These files do not have a human-readable structure, and are not portable to other programs.
@@ -361,6 +362,7 @@ roughly as though it had a constant well population equal to the plate's average
* ~~Add read depth simulation options to CLI~~ DONE * ~~Add read depth simulation options to CLI~~ DONE
* ~~Update graphml output to reflect current Vertex class attributes~~ DONE * ~~Update graphml output to reflect current Vertex class attributes~~ DONE
* Individual well data from the SequenceRecords could be included, if there's ever a reason for it * Individual well data from the SequenceRecords could be included, if there's ever a reason for it
* ~~Implement simulation of sequences being misread as other real sequence~~ DONE
* Update matching metadata output options in CLI * Update matching metadata output options in CLI
* Update performance data in this readme * Update performance data in this readme
* Re-implement CDR1 matching method * Re-implement CDR1 matching method