... | ... | @@ -295,4 +295,34 @@ For each comparisons specified in *[the comparisons file](usage/inputs#compFile) |
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┃ ┗ 📜report.html #### MAIN REPORT FOR PROJECT ####
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```
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At the root of the project folder, you will find a file named "report.html" and a folder named **REPORT**. The folder contains all javascript, images, stylesheet etc... to make the report look good. You can open the "report.html" file with your favorite browser. It gives all results generated by the pipeline into a user friendly and interactive report. |
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\ No newline at end of file |
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At the root of the project folder, you will find a file named "report.html" and a folder named **REPORT**. The folder contains all javascript, images, stylesheet etc... to make the report look good. You can open the "report.html" file with your favorite browser. It gives all results generated by the pipeline into a user friendly and interactive report.
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## The run statistics
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```sh
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📦RESULTS
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┣ 📜RUNINFO.txt # informations about the analysis
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┣ 📜config_used_in_analysis.json # configuration file used in analysis
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┣ 📜unknown.fastq.gz # all reads not assigned to a sample
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┣ 📂EXPRESSION # RUN primary analysis results (for stats only)
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┃ ┣ 📜run.all.log.dat
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┃ ┣ 📜run.all.well_summary.dat
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┃ ┣ 📜run.all.well_summary.pdf
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┃ ┣ 📜run.unq.log.dat
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┃ ┣ 📜run.unq.well_summary.dat
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┃ ┗ 📜run.unq.well_summary.pdf
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┣ 📂MULTIQC # RUN multiQC results (for stats only)
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┃ ┣ 📂multiqc_data
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┃ ┃ ┣ 📜multiqc.log
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┃ ┃ ┣ 📜multiqc_data.json
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┃ ┃ ┣ 📜multiqc_fastqc.txt
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┃ ┃ ┣ 📜multiqc_general_stats.txt
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┃ ┃ ┗ 📜multiqc_sources.txt
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┗ ┗ 📜multiqc_report.html
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```
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At the root of the working directory, you will find two folders **EXPRESSION** and **MULTIQC** which are concatenations of the same folders in each of the project folder. This folders contains the run summary files and QC for the whole plate (all projects together). You will also find:
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- "RUNINFO.txt" : informations about the run (date, user, etc of the snakemake commands used).
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- "config_used_in_analysis.json" : copy of the configuration file used.
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- "unknown.fastq.gz" : all reads that have not been assigned (wrong barcode) to any sample during the demultiplexing step. |
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\ No newline at end of file |