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Workshops/COMBINE_WA_2024.md
@@ -439,7 +439,7 @@ This generates a contig file called `final.contigs.fa`.
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We can use [count.py](../Python/countfasta.py) to count the lengths of the sequences:
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```
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-count_fasta -p -f megahit_assembled/788707_20180129_S/final.contigs.fa | perl -pe 's/^>(\S+).*\t/$1\t/' > megahit_assembled/788707_20180129_S/final.contigs.lengths.tsv
+countfasta.py -f megahit_assembled/788707_20180129_S/final.contigs.fa
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## Mapping the reads to the contigs
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