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I have a large concatenated protein multiple sequence alignment. One of the species have many undetermined 'X' amino acid. Such column will probably not add much phylogenetic signal so I want to remove all such column (that contain any X) from my alignment file.
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I did it
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You should tell us how or it did not happen
On a serious note MEGA or ClustalW should have been able to do it.Comment
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The inclusion of "X" into a MSF file is the consequence of having applied a filter for low complexity sequences present into your protein
You can make the choice of turning on or off such as filtering before the actual aligment is doneComment
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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...04-04-2024, 04:25 PM -
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...03-22-2024, 06:39 AM
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