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gmh-metagenomics-2 [2019/10/11 01:06]
telatina
gmh-metagenomics-2 [2020/02/07 09:51] (current)
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 This test will ask you to perform some computations related to 16S data, using a simplified and __unrealistic__ protocol. This test will ask you to perform some computations related to 16S data, using a simplified and __unrealistic__ protocol.
 +
 +=== Explore your data === 
  
 In the shared directory ''/​media/​data/​16S/''​ you will find a metadata file and a set of reads. In the shared directory ''/​media/​data/​16S/''​ you will find a metadata file and a set of reads.
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   * The read pairs for each sample overlap, so please merge them using a tool such as //FLASH// or //​USEARCH//,​ saving the output to ''​~/​16S/​merged''​.   * The read pairs for each sample overlap, so please merge them using a tool such as //FLASH// or //​USEARCH//,​ saving the output to ''​~/​16S/​merged''​.
  
-===  ===+=== Pre-computed steps  ===
 Some steps were made for you, You will find the output of these steps in ''​~/​output/''​. Some steps were made for you, You will find the output of these steps in ''​~/​output/''​.
   - Create a single file with all the reads from all of the samples produced in the last step (call it ''​~/​16/​merged/​all.fastq''​),​ relabeling each //read name// to begin with the sample name (filename prefix) and a progressive number. You can use the dot as separator.   - Create a single file with all the reads from all of the samples produced in the last step (call it ''​~/​16/​merged/​all.fastq''​),​ relabeling each //read name// to begin with the sample name (filename prefix) and a progressive number. You can use the dot as separator.