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phyluce_probe_slice_sequence_from_genomes raises KeyError with --flank due to str/bytes TwoBit key mismatch in v1.7.0

Status: Open.

#383 In faircloth-lab/phyluce;

· shangshanzhizhe opened on May 25, 2026

phyluce_probe_run_multiple_lastzs_sqlite fails on genome names with dots or hyphens

Enhancement

Status: Open.

#380 In faircloth-lab/phyluce;

· fdchevalier opened on Apr 10, 2026

phyluce_align_get_gblocks_trimmed_alignments_from_untrimmed FileNotFoundError

Status: Open.

#379 In faircloth-lab/phyluce;

· eeeaston opened on Mar 8, 2026

error in matching contigs to barcodes

Status: Open.

#378 In faircloth-lab/phyluce;

· kostasandriotis07 opened on Nov 21, 2025

Adding unaligned.fasta files from new taxa to existing dataset

Status: Open.

#377 In faircloth-lab/phyluce;

· hutumpyancha opened on Sep 2, 2025

Processing demultiplexed UCE fastq files from NCBI SRA

Status: Open.

#376 In faircloth-lab/phyluce;

· SaunakP25 opened on Aug 28, 2025

Error in Workflows Mapping

Status: Open.

#375 In faircloth-lab/phyluce;

· thu-115 opened on Aug 18, 2025

phyluce_align_get_only_loci_with_min_taxa not giving the correct number of taxa in output

Status: Open.

#373 In faircloth-lab/phyluce;

· GabrielaFJacintho opened on Jun 4, 2025

Too much information for Phyluce / SPAdes?

Status: Open.

#372 In faircloth-lab/phyluce;

· jb23590 opened on May 22, 2025

AttributeError: 'str' object has no attribute 'decode'. Did you mean: 'encode'?

Status: Open.

#371 In faircloth-lab/phyluce;

· mooreld opened on Apr 1, 2025

phyluce_assembly_get_fastas_from_match_counts

Status: Open.

#370 In faircloth-lab/phyluce;

· mlovelynn opened on Mar 27, 2025

How to handle long branches (fresh and degraded samples) and low UCE capture

Status: Open.

#367 In faircloth-lab/phyluce;

· jbernst opened on Feb 19, 2025