![]() Print the version information and exits.downloaded from the SRA) this section describes its use mainly with Optional quality control once the trimming process has completed.Įven though Trim Galore works for any (base space) high throughput dataset We have developed a wrapper script (trim_galore) that makes use of the Sequencing datasets) of potential problems in one convenient process. We have tried to implement a method to rid RRBS libraries (or other kinds of Adaptive quality and adapter trimming with Trim Galore Poor base call qualities or adapter contamination are however just as relevantįor ‘normal’, i.e. To the short size- selected fragment size RRBS libraries with long read lengths suffer more from all of the above due.Methylation information if the read pairs overlap paired-end RRBS libraries (especially with long read length) yield redundant.The cytosine used for the fill-in reaction but not of the true genomic positions filled in during end-repair will infer the methylation state of.May result in incorrect methylation calls and/or mis-mapping adapter contamination – may lead to low mapping efficiencies, or, if mapped,.poor qualities – affect mapping, may lead to incorrect methylation calls. ![]() Variety of errors or biases that one could probably get away with in other This is even more criticalįor the proper analysis of RRBS libraries since they are susceptible to a The analysis of almost all sequencing applications. ![]() Quality control and taking appropriate steps to remove problems is vital for Towards the next steps that need to be taken (e.g. Some quality control on the data, as it can often straight away point you trim_galore-0.6.7įor all high throughput sequencing applications, we would recommend performing This software should be available with no extra configuration. ![]()
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