For example, coverage, read depth, read quality and map quality etc
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You could use fastqc for a quick evaluation of read quality, duplication levels and GC content.
coverageBed from the Bedtools suite and a track file of your target regions is your friend regarding coverage analysis.
And on enrichments, you might want to check out calculateHsMetrics from the picard tools suite to deterime if your enrichment was good and how many reads you got on/off target.
Apart from that, I am not aware if there is a all-in-one solution.
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by seqadmin
Proteins are often described as the workhorses of the cell, and identifying their sequences is key to understanding their role in biological processes and disease. Currently, the most common technique used to determine protein sequences is mass spectrometry. While still a valuable tool, mass spectrometry faces several limitations and requires a highly experienced scientist familiar with the equipment to operate it. Additionally, other proteomic methods, like affinity assays, are constrained...-
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04-04-2024, 04:25 PM -
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by seqadmin
Despite advancements in sequencing platforms and related sample preparation technologies, certain sample types continue to present significant challenges that can compromise sequencing results. Pedro Echave, Senior Manager of the Global Business Segment at Revvity, explained that the success of a sequencing experiment ultimately depends on the amount and integrity of the nucleic acid template (RNA or DNA) obtained from a sample. “The better the quality of the nucleic acid isolated...-
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03-22-2024, 06:39 AM -
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