GameteBinning_prac

Here are the codes for a practice of gamete binning with simulated data, to achieve haplotype-resolved genome assembly.

A) Installation of publicly available tools

Please check install.sh.

Data used in this work can be downloaded at data for gamete binning practice at Zenodo

Name		Name	Last commit message	Last commit date
Latest commit History 17 Commits
data		data
dev_bin		dev_bin
list_of_all_tools_you_should_install		list_of_all_tools_you_should_install
src_GameteBinning		src_GameteBinning
src_MSTmap		src_MSTmap
src_MSTmap_correction		src_MSTmap_correction
src_asScaffolder		src_asScaffolder
src_count_alleles		src_count_alleles
src_del_regional_s1_find_markers		src_del_regional_s1_find_markers
src_del_regional_s2_find_depth		src_del_regional_s2_find_depth
src_del_regional_s3_find_genotypes		src_del_regional_s3_find_genotypes
src_fasta_length		src_fasta_length
src_fasta_name_selecter		src_fasta_name_selecter
src_fasta_separator		src_fasta_separator
src_insert_variations_to_fasta		src_insert_variations_to_fasta
src_long_read_genotyper_alignment_based		src_long_read_genotyper_alignment_based
src_mutate_dna_seq		src_mutate_dna_seq
src_simulate_gamete_genome		src_simulate_gamete_genome
LICENSE		LICENSE
README.md		README.md
install.sh		install.sh
pipeline_summary.sh		pipeline_summary.sh