Abstract: In some embodiments, techniques for identifying one or more species in an undifferentiated environmental sample comprising a plurality of nucleic acid sequences are provided. One or more indices that represent a plurality of reference nucleic acid sequences may be provided, and data may be received comprising digital representations of respective nucleic acid sequences. The respective nucleic acid sequences may be aligned, if possible, using the indices. A respective alignment ration may be calculated for each one of the reference nucleic acid sequences, based on the number of nucleic acid sequences aligned to the respective reference nucleic acid sequence and the total number of nucleic acid sequences in the received data.

Abstract: Provided are asynchronous data ingestion and enrichment systems and methods. The systems comprise a plurality of components (e.g., ingestion components, enrichment components, and/or publishing components). Instead of passing data from one component to another, the data is sent to a messaging queue that formats and hold the data until the subsequent component is ready to receive it. Additionally, each component comprises a central microservice and a plurality of instances, the central microservice configured to communicate with each instance of the plurality of instances.

Abstract: In some embodiments, techniques for identifying one or more species in an undifferentiated environmental sample comprising a plurality of nucleic acid sequences are provided. One or more indices that represent a plurality of reference nucleic acid sequences may be provided, and data may be received comprising digital representations of respective nucleic acid sequences. The respective nucleic acid sequences may be aligned, if possible, using the indices. A respective alignment ration may be calculated for each one of the reference nucleic acid sequences, based on the number of nucleic acid sequences aligned to the respective reference nucleic acid sequence and the total number of nucleic acid sequences in the received data.

Abstract: In some embodiments, techniques for identifying one or more species in an undifferentiated environmental sample comprising a plurality of nucleic acid sequences are provided. One or more indices that represent a plurality of reference nucleic acid sequences may be provided, and data may be received comprising digital representations of respective nucleic acid sequences. The respective nucleic acid sequences may be aligned, if possible, using the indices. A respective alignment ration may be calculated for each one of the reference nucleic acid sequences, based on the number of nucleic acid sequences aligned to the respective reference nucleic acid sequence and the total number of nucleic acid sequences in the received data.

Abstract: Provided are asynchronous data ingestion and enrichment systems and methods. The systems comprise a plurality of components (e.g., ingestion components, enrichment components, and/or publishing components). Instead of passing data from one component to another, the data is sent to a messaging queue that formats and hold the data until the subsequent component is ready to receive it. Additionally, each component comprises a central microservice and a plurality of instances, the central microservice configured to communicate with each instance of the plurality of instances.

Abstract: In some embodiments, techniques for identifying one or more species in an undifferentiated environmental sample comprising a plurality of nucleic acid sequences are provided. One or more indices that represent a plurality of reference nucleic acid sequences may be provided, and data may be received comprising digital representations of respective nucleic acid sequences. The respective nucleic acid sequences may be aligned, if possible, using the indices. A respective alignment ration may be calculated for each one of the reference nucleic acid sequences, based on the number of nucleic acid sequences aligned to the respective reference nucleic acid sequence and the total number of nucleic acid sequences in the received data.

Abstract: In one embodiment, a system comprising a processor and a memory storing instructions executable by the processor creates an index for a nucleic acid sequence. The index comprises a plurality of elements. Each element corresponds to a permutation of a nucleic acid sequence. Data representing a nucleic acid sequence is received. A subsequence of the nucleic acid sequence is identified in the data at a first position of the nucleic acid sequence. A hash of the subsequence is computed to determine a corresponding element of the index. Position data reflecting the first position is stored in the corresponding element of the index.

Abstract: In one embodiment, a system comprising a processor and a memory storing instructions executable by the processor creates an index for a nucleic acid sequence. The index comprises a plurality of elements. Each element corresponds to a permutation of a nucleic acid sequence. Data representing a nucleic acid sequence is received. A subsequence of the nucleic acid sequence is identified in the data at a first position of the nucleic acid sequence. A hash of the subsequence is computed to determine a corresponding element of the index. Position data reflecting the first position is stored in the corresponding element of the index.