Paul Saary
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biopaul.bsky.social
Paul Saary
@biopaul.bsky.social
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biopaul.bsky.social
I also keep switching between snakemake and nextflow. Snakemake is just so much quicker to prototype and then I am stuck
August 7, 2025 at 3:05 PM
Reposted by Paul Saary
floriantrigodet.bsky.social
We observed chimeric contigs where the assembly software reported a single contig that brought together sequences from two distinct taxa, sometimes three or more, and even sequences that belonged to distinct domains of life.
Figure 2. Multi-domain and multi-phyla contigs. Six contigs from metaMDBG, metaFlye and hifiasm-meta. For each contigs we displayed the GC content, coverage in the metagenomics reads used for their assembly, gene level taxonomy. For each assembly breakpoint, we display a zoomed-in detail of the read mapping from IGV. In these subplots, red arrows at the end of the mapped read indicate clipping and the coloring at the end of these reads indicates that the following portion of the read mapped to another contig and similar colors indicate that multiple reads continue to map on the same contig. Blue markers indicate large indels (> 150bp)
April 28, 2025 at 8:08 AM