Intro to Genome Assembly

Last updated Jul 25, 2020

Launch in Tutorial Mode question
License: None Specified, defaults to CC-BY-4.0
Tests: ✅ Results: Not yet automated

flowchart TD
  0["ℹ️ Input Dataset\nmutant_R1.fastq"];
  style 0 stroke:#2c3143,stroke-width:4px;
  1["ℹ️ Input Dataset\nmutant_R2.fastq"];
  style 1 stroke:#2c3143,stroke-width:4px;
  2["ℹ️ Input Dataset\nwildtype.fna"];
  style 2 stroke:#2c3143,stroke-width:4px;
  3["FastQC"];
  0 -->|output| 3;
  22a51e6e-2e5f-4415-a127-e0b1c179a1b1["Output\nfastqc_html"];
  3 --> 22a51e6e-2e5f-4415-a127-e0b1c179a1b1;
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  51ec8c05-eb47-4359-9120-0eca1a6d5c2f["Output\nfastqc_txt"];
  3 --> 51ec8c05-eb47-4359-9120-0eca1a6d5c2f;
  style 51ec8c05-eb47-4359-9120-0eca1a6d5c2f stroke:#2c3143,stroke-width:4px;
  4["FastQC"];
  1 -->|output| 4;
  5["FASTQ interlacer"];
  0 -->|output| 5;
  1 -->|output| 5;
  225edf5f-3b90-4f84-a38a-5c786000a3fc["Output\noutput_pairs"];
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  dae90093-ae96-4bb2-824d-c92b61585096["Output\noutput_singles"];
  5 --> dae90093-ae96-4bb2-824d-c92b61585096;
  style dae90093-ae96-4bb2-824d-c92b61585096 stroke:#2c3143,stroke-width:4px;
  6["MultiQC"];
  3 -->|text_file| 6;
  4 -->|text_file| 6;
  85e3704a-859d-4657-b3d7-9b67e4981d21["Output\nmultiqc_stats"];
  6 --> 85e3704a-859d-4657-b3d7-9b67e4981d21;
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  fab7e06a-604e-4432-b0ed-b63157a8643b["Output\nmultiqc_report"];
  6 --> fab7e06a-604e-4432-b0ed-b63157a8643b;
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  7["velveth"];
  5 -->|outfile_pairs| 7;
  607a214d-9137-4e73-9b73-954c79678937["Output\nvelveth_out"];
  7 --> 607a214d-9137-4e73-9b73-954c79678937;
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  8["velvetg"];
  7 -->|out_file1| 8;
  b0cf3779-6199-42c9-963f-a733559f90bb["Output\nvelvet_contigs"];
  8 --> b0cf3779-6199-42c9-963f-a733559f90bb;
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  54926701-ccae-4143-b649-b7e08e1c6a8e["Output\nvelvet_stats"];
  8 --> 54926701-ccae-4143-b649-b7e08e1c6a8e;
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  9["Quast"];
  2 -->|output| 9;
  8 -->|contigs| 9;
  0babe959-4d63-4838-9e18-4526b3dd0db5["Output\nquast_report_html"];
  9 --> 0babe959-4d63-4838-9e18-4526b3dd0db5;
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  f41c43c4-763c-42bc-b36e-9ea76e7752c2["Output\nquast_report_pdf"];
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