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1. 发明申请

US20210295950A1 METHOD FOR ENCODING AND DECODING OF QUALITY VALUES OF A DATA STRUCTURE 有权
公开(公告)号：US20210295950A1
公开(公告)日：2021-09-23
申请号：US16341307
申请日：2016-10-12
申请人： Gottfried Wilhelm Leibniz Universität Hannover , Stanford University
发明人： Jan VOGES , Mikel HERNAEZ , Jörn OSTERMANN
IPC分类号： G16B30/10 , H03M7/30 , G06F16/215 , G06F16/21 , G06F16/22
摘要： The invention relates to a method for encoding of quality values of a data structure, whereby said data structure includes a plurality of continuous fragments, each continuous fragment comprises a sequence of symbols derived from a symbol alphabet and corresponds to a segment of one reference sequence of one or more reference sequences, whereby each continuous fragment is aligned to locus indexes of one of said reference sequence and at least a portion of said continuous fragments overlap at an aligned locus index, and includes, further, a plurality of quality values, each quality value is derived from a quality value alphabet and is assigned to a corresponding symbol of one of the continuous fragments, whereby each quality value indicates a likelihood that the corresponding symbol in the corresponding continuous fragment is correct, wherein the method comprises the steps executable by a data processing system: —determine the quality values at a specific locus index, which are assigned to symbols of continuous fragments aligned to said specific locus index; —calculate an estimation certainty at the specific locus index based on the determined quality values, whereby said estimation certainty indicates a likelihood of correctness for each quality value of the determined quality values in relation to the corresponding symbols; and —encode the determined quality values by transform of each determined quality values into a transformed quality value based on the calculated estimation certainty.

2. 发明申请

US20200153454A1 METHOD FOR ENCODING AND DECODING OF QUALITY VALUES OF A DATA STRUCTURE 审中-公开
公开(公告)号：US20200153454A1
公开(公告)日：2020-05-14
申请号：US16630891
申请日：2018-07-16
申请人： GOTTFRIED WILHELM LEIBNIZ UNIVERSITÄT HANNOVER
发明人： Jan VOGES , Jörn OSTERMANN
IPC分类号： H03M7/30 , H03M7/40 , G16B30/10 , G16B50/00
摘要： Method for encoding of quality values of a data structure, whereby said data structure comprises a set of genomic reads, wherein the method comprises the following steps executable by a data processing system: ascertain the quality values of each read covering a certain index locus, determine a codebook identifier identifying a specific codebook from a plurality of codebooks for said certain index locus based on the ascertained quality values of said certain index locus, whereby each code-book provides a mapping from a quality value of said quality value alphabet to a corresponding quantized quality value of a quantized quality value alphabet, quantizing all ascertained quality values at said certain index locus using the specific codebook identified by the codebook identifier at said certain index locus in order to obtain for each quality value at said certain index locus a corresponding quantized quality value, and encode all determined codebook identifiers using a first entropy encoder and encode all quantized quality values using a second entropy encoder or a set of encoders.

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