Supplementary Data of "Introgression between highly divergent sea squirt genomes: an adaptive breakthrough?"
Description
Datasets used in the analyses (see Table S5 for a detailed description).
► Dataset #1: phased SNPs with offspring.
joint_bwa_mem_mdup_IR_recal_variants_refine_HQ_denovo_Oad18ad31ad2.clean.biallelic.noindels_filter_phased_phasedBeagle.vcf
► Dataset #2: all SNPs with missing data.
joint_bwa_mem_mdup_IR_recal_variants_refine_HQ_denovo_Oad18ad31ad2.clean.biallelic.noindels_filter_parents_oNA5.vcf
► Dataset #3a: phased SNPs.
joint_bwa_mem_mdup_IR_recal_variants_refine_HQ_denovo_Oad18ad31ad2.clean.biallelic.noindels_filter_phased_phasedBeagle_parents.vcf
► Dataset #3b: CDS version of “phased SNPs”.
joint_bwa_mem_mdup_IR_recal_variants_refine_HQ_denovo_Oad18ad31ad2.clean.biallelic.noindels_filter_phased_phasedBeagle_parents_SNP_CHRall.orf.cds
► Dataset #3c: FASTA version of “phased SNPs”.
joint_bwa_mem_mdup_IR_recal_variants_refine_HQ_denovo_Oad18ad31ad2.clean.biallelic.noindels_filter_phased_phasedBeagle_parents_SNP_chr5.sub_${START}-${END}.fasta
► Dataset #4: ancestry informative phased SNPs.
joint_bwa_mem_mdup_IR_recal_variants_refine_HQ_denovo_Oad18ad31ad2.clean.biallelic.noindels_filter_phased_phasedBeagle_parents.frq.fixed.vcf
► Dataset #5: all SNPs.
joint_bwa_mem_mdup_IR_recal_variants_refine_HQ_denovo_Oad18ad31ad2.clean.biallelic.noindels_filter_parents_oNA.vcf
► Dataset #6: all polarized SNPs.
joint_bwa_mem_mdup_IR_recal_variants_refine_HQ_denovo_Oad18ad31ad2.clean.biallelic.noindels_filter_parents_raw_refine_HQ_edwardsi_oNA3_polar.vcf
► Dataset #7: unfiltered mapping files.
ciona_bwa-mapping_${IND}_bwa_mem_mdup_IR_chromosome5:700000-1500000_sorted_nodup.bam
Files
Files
(7.4 GB)
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Additional details
Related works
- Is cited by
- Journal article: 10.1101/2022.03.22.485319 (DOI)
Funding
- MUSE – MUSE ANR-16-IDEX-0006
- Agence Nationale de la Recherche
- HYSEA – Hybridization, a pivotal but neglected contributor to marine biodiversity dynamics ANR-12-BSV7-0011
- Agence Nationale de la Recherche