$ perl mipinstall.pl This will generate a batch script 'mip.sh' for the install in your working directory. Note:. The batch script will install the MIP dependencies in Conda's root environment. Often it is beneficial to create a separate environment for each of your applications. In order to create a separate environment for MIP supply the -env envname flag when running mipinstall.pl. For a full list of available options and parameters, run: $ perl mipinstall.pl -help.
For a full list of parameter defaults, run: $ perl mipinstall.pl -ppd 5.Run the bash script. $ mip -f 3 -sampleids 3-1-1A -sampleids 3-2-1U -sampleids 3-2-2U -pfqc 0 -pbwamem 2 -c 3config.yaml This will analyse family 3 using 3 individuals from that family and begin the analysis with programs after Bwa mem and use all parameter values as specified in the config file except those supplied on the command line, which has precedence. Input All references and template files should be placed directly in the reference directory specified by -referencedir. Meta-Data.
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(YAML-format). (YAML-format).
(Ini-format; Snv/indel). (Ini-format; SV). (YAML-format) Output Analyses done per individual is found in each sampleid directory and analyses done including all samples can be found in the family directory. Sbatch Scripts MIP will create sbatch scripts (.sh) and submit them in proper order with attached dependencies to SLURM.
These sbatch script are placed in the output script directory specified by -outscriptdir. The sbatch scripts are versioned and will not be overwritten if you begin a new analysis. Versioned 'xargs' scripts will also be created where possible to maximize the use of the cores processing power. Data MIP will place any generated datafiles in the output data directory specified by -outdatadir. All data files are regenerated for each analysis.
STDOUT and STDERR for each program is written in the program/info directory prior to alignment and in the aligner/info directory post alignment.
Index Werte Aktuell Diff. Diff.% Volumen 30 11.180,66 +7,56 +0,07% 4,54 Mrd. 30 2.516,50 -71,16 -2,75% 1,75 Mrd. 60 23.746,71 +72,19 +0,30% 843,44 Mio. 70 10.539,75 -12,23 -0,12% 175,33 Mio. 19 1.815,88 -9,76 -0,53% 31,44 Mio. 320 2.951,18 +3,88 +0,13% 5,61 Mrd.
30 25.063,89 +64,22 +0,26% 18,50 Mrd. 2623 7.263,8679 -17,87 -0,25% 61,00 Mrd. 103 6.875,5179 -31,32 -0,45% 44,18 Mrd. 505 2.706,53 +2,43 +0,09% - 225 20.788,39 +14,90 +0,07% - 30 11.190,80 +10,15 +0,09% - 30 11.177,54 -24,82 -0,22% 24,91 Mio. 30 2.527,07 -63,38 -2,45% 17,52 Mio.
60 23.695,42 +22,73 +0,10% 3,70 Mio. 71 10.539,88 -4,33 -0,04% 1,35 Mio.