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Artemia_francisca_genome_list_of_samples.xlsx
Artemia_francisca_genome_list_of_samples.xlsx
 
 
Coverage_analysis.md
Coverage_analysis.md
 
 
FST.md
FST.md
 
 
README.md
README.md
 
 
README_old.md
README_old.md
 
 
Reciprocal_BLAST.pl
Reciprocal_BLAST.pl
 
 
Transposable_elements_annotation.md
Transposable_elements_annotation.md
 
 
blobtools.md
blobtools.md
 
 
braker_genome_annotation.md
braker_genome_annotation.md
 
 
dNdS_analysis.md
dNdS_analysis.md
 
 
expression_analysis.md
expression_analysis.md
 
 
final_pipeline.md
final_pipeline.md
 
 
linkage_map.tsv
linkage_map.tsv
 
 
main_pipeline.md
main_pipeline.md
 
 
markers_first100.fa
markers_first100.fa
 
 
markers_last100_rc.fa
markers_last100_rc.fa
 
 
pblat_based_synteny
pblat_based_synteny
 
 

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Artemia_franciscana_genome

Supplementary Code for the artemia franciscana genome project:

This repository includes all the scripts and commands used by the authors. If anything is missing or not clear, please do not hesitate to reach out to us, and we will do our best to fix the issue or provide more details.

Below is a rough guide to the content of each file/folder:

  1. Genome Assembly
  2. blobtools
  3. Coverage Analysis
  4. FST
  5. Annotation
  6. Expression Analysis
  7. TE_Annotation
  8. dNdS between Z and W
  9. pblat reciprocal besthits

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