A pipeline for variant calling from P. falciparum short reads generated from Illumina and ONT libraries
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Updated
Dec 20, 2023 - Python
A pipeline for variant calling from P. falciparum short reads generated from Illumina and ONT libraries
Creates a construct developed by the Niles Lab at MIT, designed to deliver a 3' UTR post-transcriptional regulatory element payload to a specific given gene in Plasmodium falciparum.
This repository contains data and code for our analysis of the genome of a Plasmodium falciparum strain with reduced susceptibility to Artemisinin-Based Combination Therapy (ACT) drugs. We performed whole-genome sequencing of the HSOG3 clinical isolate and compared it with a large dataset of global P. falciparum samples.
Calculating the coverage depth for each coding gene and the percentage of each gene covered at ≥ 10X depth.
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