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blacklister

Improve your metagenomic reference sequence: Simple adapter and contamination FASTA masking using bowtie2 and bedtools

ShellEmergingbioinformaticscontamination-filteringfastamasking

Stars

4

Forks

1

Contributors

2

Last push

1mo ago

Recent commits

Latest commits.

fix samtools view cmd to use outfile
e5f2622Colin Davenport1mo ago
fix: Separate bowtie2 and samtools steps to avoid pipe corruption (v0.18)
0f69d63Colin Davenport1mo ago
fix: Convert relative paths to absolute paths to prevent working directory issues
1fa30a9Colin Davenport1mo ago
fix: Correct bowtie2 index basename handling (remove file extension)
06a0eb7Colin Davenport1mo ago
fix: Add support for contaminant FASTA as second argument, improve error messages
b5ecf5eColin Davenport

1mo ago

fix: Update test script to pass contaminants as argument

ea320e5Colin Davenport1mo ago

build: Add .gitignore for test directory

31f7aeeColin Davenport1mo ago

test: Add test data setup script with NCBI downloads

388a91dColin Davenport1mo ago

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