Add 3rd FASTQ file containing UMI sequences for the duplex-seq tiny dataset. #1201
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10 tasks
adamrtalbot
commented
May 15, 2024
| SRR6109255,SRR6109255,false,https://raw.githubusercontent.com/nf-core/test-datasets/fastquorum/testdata/duplex-seq/tiny/SRR6109255_1.fastq.gz,https://raw.githubusercontent.com/nf-core/test-datasets/fastquorum/testdata/duplex-seq/tiny/SRR6109255_2.fastq.gz,10M1S+T 10M1S+T | ||
| sample,id,single_end,fastq_1,fastq_2,fastq_3,read_structure | ||
| SRR6109255,SRR6109255,false,https://raw.githubusercontent.com/nf-core/test-datasets/fastquorum/testdata/duplex-seq/tiny/SRR6109255_1.fastq.gz,https://raw.githubusercontent.com/nf-core/test-datasets/fastquorum/testdata/duplex-seq/tiny/SRR6109255_2.fastq.gz,,10M1S+T 10M1S+T | ||
| SRR6109255,SRR6109255,false,https://raw.githubusercontent.com/nf-core/test-datasets/fastquorum/testdata/duplex-seq/tiny/SRR6109255_1.fastq.gz,https://raw.githubusercontent.com/nf-core/test-datasets/fastquorum/testdata/duplex-seq/tiny/SRR6109255_2.fastq.gz,https://github.com/nf-core/test-datasets/raw/fastquorum_umi_fastq_file/testdata/duplex-seq/tiny/SRR6109255_3.fastq.gz,11S+T 11S+T +M |
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This should be updated before PR is merged:
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| SRR6109255,SRR6109255,false,https://raw.githubusercontent.com/nf-core/test-datasets/fastquorum/testdata/duplex-seq/tiny/SRR6109255_1.fastq.gz,https://raw.githubusercontent.com/nf-core/test-datasets/fastquorum/testdata/duplex-seq/tiny/SRR6109255_2.fastq.gz,https://github.com/nf-core/test-datasets/raw/fastquorum_umi_fastq_file/testdata/duplex-seq/tiny/SRR6109255_3.fastq.gz,11S+T 11S+T +M | |
| SRR6109255,SRR6109255,false,https://raw.githubusercontent.com/nf-core/test-datasets/fastquorum/testdata/duplex-seq/tiny/SRR6109255_1.fastq.gz,https://raw.githubusercontent.com/nf-core/test-datasets/fastquorum/testdata/duplex-seq/tiny/SRR6109255_2.fastq.gz,https://raw.githubusercontent.com/nf-core/test-datasets/fastquorum/testdata/duplex-seq/tiny/SRR6109255_3.fastq.gz,11S+T 11S+T +M |
15 tasks
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@adamrtalbot sorry to be a pedant, but could you submit a PR from a fork, as per this: https://nf-co.re/docs/contributing/test_data_guidelines#adding-new-test-data |
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Done: #1205 |
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Adds third FASTQ which contains only UMI sequences for testing with read structures that use a separate FASTQ file. Use bases mask
11S+T 11S+T +Mwhich has been included in the tiny samplesheet.