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nurgissa88's Projects

detect-mutations icon detect-mutations

Python script for detecting mutations in aligned reads (.bam |.sam) e.g. from RNA base conversion techniques such as TimeLapse, SLAM-seq, TUC-seq

gnomad_db icon gnomad_db

This package scales the huge gnomAD files to a SQLite database, which is easy and fast to query. It extracts from a gnomAD vcf the minor allele frequency for each variant.

manta icon manta

Structural variant and indel caller for mapped sequencing data

psmc icon psmc

Implementation of the Pairwise Sequentially Markovian Coalescent (PSMC) model

pysamstats icon pysamstats

A fast Python and command-line utility for extracting simple statistics against genome positions based on sequence alignments from a SAM or BAM file.

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