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Kiah McIntosh 2026-05-14 10:50:18 +00:00
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README.md
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@ -29,6 +29,11 @@ together. The workflow also produces separate per-sample transcriptomes, so
each sample has its own GTF, FASTA, count tables, and optional `SQANTI3` each sample has its own GTF, FASTA, count tables, and optional `SQANTI3`
summary alongside the shared results. summary alongside the shared results.
<figure>
<img src="docs/images/wf-transcriptomes.drawio.svg" alt="wf-transcriptomes overview schematic."/>
<figcaption>Schematic depicting wf-transcriptomes workflow.</figcaption>
</figure>
For users familiar with earlier transcriptome workflows, the main change is For users familiar with earlier transcriptome workflows, the main change is
that transcript discovery, quantification, and optional differential analysis that transcript discovery, quantification, and optional differential analysis
now use the shared `bambu` outputs rather than the older now use the shared `bambu` outputs rather than the older

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docs/02_introduction.md
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@ -21,6 +21,11 @@ together. The workflow also produces separate per-sample transcriptomes, so
each sample has its own GTF, FASTA, count tables, and optional `SQANTI3` each sample has its own GTF, FASTA, count tables, and optional `SQANTI3`
summary alongside the shared results. summary alongside the shared results.
<figure>
<img src="docs/images/wf-transcriptomes.drawio.svg" alt="wf-transcriptomes overview schematic."/>
<figcaption>Schematic depicting wf-transcriptomes workflow.</figcaption>
</figure>
For users familiar with earlier transcriptome workflows, the main change is For users familiar with earlier transcriptome workflows, the main change is
that transcript discovery, quantification, and optional differential analysis that transcript discovery, quantification, and optional differential analysis
now use the shared `bambu` outputs rather than the older now use the shared `bambu` outputs rather than the older

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