Closed
Milestone
Analyses
Analyses to be done
Unstarted Issues (open and unassigned)
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Ongoing Issues (open and assigned)
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Completed Issues (closed)
21
- polishing update: LR/SR polishing of LR/hy assemblies and include unpolished
- specialtigs
- Add "hyhy" IMP3 assembly
- Renaming proteins in FASTA for CD-HIT analysis
- Figure: barrnap results
- Figure: gene length distribution
- hypothesis - high error rate in genes in flye assembly
- DIAMOND hits - query and subject coverage and their ratio
- CD-HIT protein clustering - difference length
- tax. classification of proteins w/ kaiju
- Filter assembly contigs
- mash screen to find contigs not present in other assemblies
- Figure: heatmap/hclust for mash dist
- mash analysis
- Dataset GIS20
- Taxonomic analysis kraken2
- Circular contigs
- metaT mapping -- rm ribosomal reads
- Aligning meta-genomes using mummer
- Mapping: SR to metaspades assembly
- snakefile - SAMTOOLS & CRISPR
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