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bioc
sangeranalyseR:sangeranalyseR: a suite of functions for the analysis of Sanger sequence data in R
This package builds on sangerseqR to allow users to create contigs from collections of Sanger sequencing reads. It provides a wide range of options for a number of commonly-performed actions including read trimming, detecting secondary peaks, and detecting indels using a reference sequence. All parameters can be adjusted interactively either in R or in the associated Shiny applications. There is extensive online documentation, and the package can outputs detailed HTML reports, including chromatograms.
Maintained by Kuan-Hao Chao. Last updated 30 days ago.
geneticsalignmentsequencingsangerseqpreprocessingqualitycontrolvisualizationgui
5.76 score 46 scriptsbioc
scifer:Scifer: Single-Cell Immunoglobulin Filtering of Sanger Sequences
Have you ever index sorted cells in a 96 or 384-well plate and then sequenced using Sanger sequencing? If so, you probably had some struggles to either check the electropherogram of each cell sequenced manually, or when you tried to identify which cell was sorted where after sequencing the plate. Scifer was developed to solve this issue by performing basic quality control of Sanger sequences and merging flow cytometry data from probed single-cell sorted B cells with sequencing data. scifer can export summary tables, 'fasta' files, electropherograms for visual inspection, and generate reports.
Maintained by Rodrigo Arcoverde Cerveira. Last updated 4 months ago.
preprocessingqualitycontrolsangerseqsequencingsoftwareflowcytometrysinglecell
5 stars 5.54 score 9 scripts