pangenome
Here are 64 public repositories matching this topic...
Pangenome clustering using entropy, relative entropy, cumulative RE, hybrid distributions, et.al
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Jun 20, 2018 - Clojure
Simulate pangenomes according to the IMG + Neutral models
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Jul 30, 2019 - R
Archive of personal scripts repository from my various projects in the Buell Lab at MSU (Jan. 2008 - Apr. 2011)
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Sep 12, 2019 - Perl
PAPi (Pangenome Analysis Pipeline)
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May 29, 2020 - R
Integrate multiple assemblies into a pangenome graph
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Dec 25, 2020 - Python
My PhD dissertation on bovine pangenome graph
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Jul 19, 2021 - TeX
Pangenome-Analysis.py is written for extraction of core, accessory and unique genomes (Gene families and proteins) along with filtration of single copy orthologues, creation of binary and count matrices as well as removal of duplicates.
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Feb 21, 2022 - Python
A small R script for generating pangenome accumulation curves
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Apr 2, 2022 - R
ODGI: understanding pangenome graphs (https://doi.org/10.1093/bioinformatics/btac308)
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Apr 27, 2022 - TeX
Integrate multiple genome assemblies into a pangenome graph
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Jun 9, 2022 - Python
Single Cell guided Pangenome analysis pipeline using SPAdes, CheckM, GTDB-Tk, Prokka, Roary and extensive quality control.
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Jul 18, 2022 - Nextflow
Scripts to analyze the data for the paper "An outstanding bacterial membranome requires CRISPR-Cas systems to avoid the intervention of phages" and derive the figures or subfigures shown in the manuscript.
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Oct 11, 2022 - Python
Strain-level abundances estimation in metagenomic samples using variation graphs
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Jan 29, 2023 - Python
A comprehensive and intuitive encapsulated OO class system for analyzing bacterial pangenomes in R.
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Feb 14, 2023 - R
π»π‘πͺ D4GEN2023 Hackaton π§¬ππ¨βπ»
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Apr 2, 2023 - Jupyter Notebook
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