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02. Genome Editing
George Pacheco edited this page Jul 23, 2022
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The genome used as reference here is the K. hermaphroditus (PANRS) reference genome published by Soi et al. 2021 and available here.
We edited the genome's scaffolds' names to ease its use in the downstream analyses.
zcat ~/Desktop/msGBS_data/ES-Article/ES-Genome/GCA_007896545.1_ASM789654v1_genomic.fna.gz | awk '{split($0,a," "); print a[1]'} > ~/Desktop/msGBS_data/ES-Article/ES-Genome/GCA_007896545.1_ASM789654v1_genomic.Edited.fna
cat /scratch/waldirmbf/OutgroupGenome/GCF_014905685.2_NemWhi1_genomic.fna | awk '{split($0,a," "); print a[1]'} > /scratch/waldirmbf/OutgroupGenome/GCF_014905685.2_NemWhi1_genomic.Edited.fasta
- 01. Data Access
- 02. Genome Editing
- 03. Genome Indexing
- 04. Mapping of msGBS Samples
- 05. Additional Genomes Processing and Mapping
- 06. Global Depth Distribution
- 07. mtDNA phylogeny
- 08. Nuclear Genome Datasets
- 09. Phylogenetic Reconstruction
- 10. Reticulation Analysis
- 11. Introgression Analysis
- 12. Genetic structure
- 13. Patterns of allele distribution