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planemo upload for repository https://github.com/fubar2/microsatbed commit d952bc313f408735456747c3d33e09a3170c8f59
author fubar
date Sun, 14 Jul 2024 23:52:21 +0000
parents 804193bbae25
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1 ## microsatellites to bed features 1 ## microsatellites to bed features
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4 **Convert short repetitive sequences to bed features** 3 **Convert short repetitive sequences to bed features**
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6 Microsatellites refer to short DNA patterns that are repeated. 5 Microsatellites are usually defined as repeated short DNA patterns in an unbroken sequence.
7 A pattern or *motif* can be any combination nucleotides, typically from 1 to 6nt in length. 6 A microsatellite pattern or *motif* can be any combination nucleotides, typically from 1 to 6nt in length.
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9 This tool allows microsatellite and related features to be selected from a fasta sequence input file, and output into a single bed track, suitable for viewing in a genome browser such as JBrowse2. 8 This tool allows microsatellite and related features to be selected from a fasta sequence input file, and output into a single bed track, suitable for viewing in a genome browser such as JBrowse2.
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11 All motifs of selected lengths can be reported as individual features in the output bed file, or specific motifs can be provided and all 10 All motifs of selected lengths can be reported as individual features in the output bed file, or specific motifs can be provided and all
12 others will be ignored. In all cases, a minimum required number of repeats can be specified. For example, requiring 2 or more repeats of the trimer *ACG* will report 11 others will be ignored. In all cases, a minimum required number of repeats can be specified. For example, requiring 2 or more repeats of the trimer *ACG* will report