Showing 4 of total 4 results (show query)
bioc
ACE:Absolute Copy Number Estimation from Low-coverage Whole Genome Sequencing
Uses segmented copy number data to estimate tumor cell percentage and produce copy number plots displaying absolute copy numbers.
Maintained by Jos B Poell. Last updated 5 months ago.
copynumbervariationdnaseqcoveragewholegenomevisualizationsequencing
15 stars 7.03 score 18 scriptsbioc
biscuiteer:Convenience Functions for Biscuit
A test harness for bsseq loading of Biscuit output, summarization of WGBS data over defined regions and in mappable samples, with or without imputation, dropping of mostly-NA rows, age estimates, etc.
Maintained by Jacob Morrison. Last updated 5 months ago.
dataimportmethylseqdnamethylation
6 stars 5.98 score 16 scriptsbioc
cfdnakit:Fragmen-length analysis package from high-throughput sequencing of cell-free DNA (cfDNA)
This package provides basic functions for analyzing shallow whole-genome sequencing (~0.3X or more) of cell-free DNA (cfDNA). The package basically extracts the length of cfDNA fragments and aids the vistualization of fragment-length information. The package also extract fragment-length information per non-overlapping fixed-sized bins and used it for calculating ctDNA estimation score (CES).
Maintained by Pitithat Puranachot. Last updated 5 months ago.
copynumbervariationsequencingwholegenome
8 stars 5.20 score 8 scriptsbioc
GeneBreak:Gene Break Detection
Recurrent breakpoint gene detection on copy number aberration profiles.
Maintained by Evert van den Broek. Last updated 5 months ago.
acghcopynumbervariationdnaseqgeneticssequencingwholegenomevisualization
2 stars 4.60 score 6 scripts