A collection of various tools useful for the deep analysis of data generated via the CRSSANT/rna2d3d pipeline.
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Updated
Sep 10, 2024 - Python
A collection of various tools useful for the deep analysis of data generated via the CRSSANT/rna2d3d pipeline.
Polymorphic Edge Detection - An efficient polymorphism detector for NGS data
pyAmpli: an amplicon-based variant filter pipeline for targeted enriched resequencing data
useful bash one-liners and scripts
Algorithm to implement Fraction and Allelic Copy number Estimate from Tumor/normal Sequencing using unmatched normal sample(s) for log ratio calculations
Fast in-silico normalization algorithm for NGS data
Tools for analyzing NGS sequence data and aligned protein sequences
myVCF: a web-based platform for target and exome mutations data management
Method to optimally select samples for validation and resequencing
A tool to extract mappable reads from various library preparation protocols.
BS-Seeker3: An Ultra-fast, Versatile Pipeline for Mapping Bisulfite-treated Reads.
Extract unmapped read fragments from a sequence alignment map by evaluating it's concise idiosyncratic gapped alignment reports (CIGARs)
SRSF shape analysis framework for sequencing data
WOLAND is a multiplatform tool to analyze point mutation patterns using resequencing data from any organism or cell. It is implemented as a Perl and R tool using as inputs filtered unannotated or annotated SNV lists, combined with its correspondent genome sequences.
ALAPY COMPRESSOR: FASTQ lossless compressor
Miscellaneous tools for the analysis of NGS data
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