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Update README.md
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mish-su authored Jun 15, 2023
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Expand Up @@ -8,6 +8,8 @@ This repository contains the New York City Public Health Laboratory local datase
* pipeline.txt - Overview of pipeline and associated scripts

Data files:


Fasta files can be directly inputted into any software that takes multi-fasta format such as [pangolin](https://github.com/cov-lineages/pangolin) or [Nextclade](https://clades.nextstrain.org/). This is not to be confused with multiple sequence alignment (MSA), which aligns the sequences against each other instead of just listing them.
* nyc_failed_aug-nov2021.fasta - Fasta file containing 469 genome consensus sequences for SARS-CoV-2 that had N >10%.
* nyc_passed_aug-nov2021.fasta.xz - Compressed fasta file containing genome consensus sequences for SARS-CoV-2 that had N <10%.
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