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When running ANGSD/realSFS, how can I exclude data from a specific chromosome, such as the X chromosome?

Status: Open.

#655 In ANGSD/angsd;

· kuangzhuoran opened on Jul 14, 2025

How long can the ANGSD relatedness analysis take?

Status: Open.

#654 In ANGSD/angsd;

· juanfmasello opened on Jun 27, 2025

doIBS -maxFreq argument removes all sites

Status: Open.

#652 In ANGSD/angsd;

· alexpiper opened on Apr 12, 2025

vcf input with population info

Status: Open.

#651 In ANGSD/angsd;

· Ida921 opened on Mar 26, 2025

Issue in SNP calling

Status: Open.

#650 In ANGSD/angsd;

· faizee-ali opened on Mar 19, 2025

SNPs calling

Status: Open.

#649 In ANGSD/angsd;

· zhengluo-zz opened on Mar 19, 2025

doMaf (?) relabelling all chromosomes as Chr1

Status: Open.

#648 In ANGSD/angsd;

· mhuzzell opened on Mar 10, 2025

Locating DSTAT.R

Status: Open.

#647 In ANGSD/angsd;

· szitenberg opened on Feb 4, 2025

Exit code should be non-zero when failing to read an input file

Status: Open.

#646 In ANGSD/angsd;

· Gullumluvl opened on Jan 22, 2025

Calling pseudohaploid genotypes

Status: Open.

#644 In ANGSD/angsd;

· jkimsis opened on Jan 16, 2025

NGSadmix plots have inconsistencies among reps.

Status: Open.

#642 In ANGSD/angsd;

· carolazari opened on Dec 18, 2024

Variability in heterozygotes between folded and unfolded SFS

Status: Open.

#641 In ANGSD/angsd;

· NicoleAdams-sci opened on Dec 4, 2024