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Update paper.md #19

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Jul 15, 2023
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Update paper.md #19

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6 changes: 3 additions & 3 deletions manuscript/paper.md
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Expand Up @@ -38,9 +38,9 @@ affiliations:
index: 1
- name: Centre for Epidemic Response and Innovation, CERI, University of Stellenbosch, Stellenbosch, South Africa
index: 2
- name: Yale University School of Medicine, New Haven, Connecticut, USA
- name: Yale University School of Medicine, New Haven, Connecticut, United States of America
index: 3
- name: Department of Global Health, University of Washington, Seattle, WA, USA
- name: Department of Global Health, University of Washington, Seattle, WA, United States of America
index: 4
- name: University College Cork, Ireland
index: 5
Expand Down Expand Up @@ -130,7 +130,7 @@ Genomic epidemiology and associated public health interventions entirely depend

# Future prospects:

Many microorganisms have fragmented genes (exons separated by introns), overlapped genes or genes with frameshift events such as Influenza A with a segmented genome, however, at present the tool only supports single-segment genomes without other stated events. We plan to extend it to support complex gene and genome structures. We wish to report INDELs whose length is not a multiple of 3 and yet they are present in the same read and summation leads to a multiple of three. Furthermore, as the cost of sequencing continues to decrease and the capacity to sequence increases, we expect to see a further influx in the number of microbial genomes. To this effect, we intend to implement performance enhancements to reduce the batch analyses running time given a fairly large number of genomes.
Many microorganisms have fragmented genes (exons separated by introns), overlapping genes or genes with frameshift events such as Influenza A with a segmented genome, however, at present the tool only supports single-segment genomes without other stated events. We plan to extend it to support complex gene and genome structures. We wish to report INDELs whose length is not a multiple of 3 and yet they are present in the same read and summation leads to a multiple of three. Furthermore, as the cost of sequencing continues to decrease and the capacity to sequence increases, we expect to see a further influx in the number of microbial genomes. To this effect, we intend to implement performance enhancements to reduce the batch analyses running time given a fairly large number of genomes.

# Acknowledgements

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