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pysamHere are 22 public repositories matching this topic...Sort: Most stars
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ld-tools: toolkit for linkage disequilibrium calculation designed to work locally
python bioinformatics linkage-disequilibrium sqlite snp ld vigg pysam ldlink ld-calculator haploreg ld-tools
Small program to mask positions that are likely to result in PMD artifact from a BAM file using a predefined SNP catalog
Annotation pipeline for HPDS
Сompute support for ALT and REF alleles from aligned reads
Python toolkit for converting BAM/SAM alignments into coverage, SNP, and indel overviews, with SCG-based normalization and R/ggplot2 visualization
bioinformatics genomics sam data-visualization variant-calling bam copy-number-variation transposable-elements pysam coverage-analysis
Detect short tandem repeats (STRs) and call repeat expansions from long-read (Oxford Nanopore) BAM files — motif discovery, per-allele repeat length, coverage, and visual reports.
bioinformatics nanopore genomics str variant-calling bam tandem-repeats oxford-nanopore pysam long-read-sequencing short-tandem-repeats pac-bio repeat-expansion
SOLARA - open-source solar + battery storage optimization platform built on NREL PySAM. Techno-economic analysis, NSGA-II / Bayesian / ML-surrogate optimization, NEC 2023 compliance checks and an interactive Dash dashboard.
python optimization plotly dash electrical-engineering solar-energy energy-storage nrel renewable-energy pysam photovoltaics battery-storage techno-economic-analysis
Tools to discover natural selection given multiple evolved DNA sequences (e.g., gnomad cohort, or multiple tumor samples)
Progetto di Elementi di Bioinformatica, A.A. 2021/2022
Investigating unmapped reads within next generation sequencing data will provide additional information regarding the source of the trace microbial reads.
Bioinformatics CLI tool to generate WIG tracks from SAM/BAM files
142 MW PV + 50 MW CSP trough hybrid plant with thermal storage in Spain, PySAM modelling, MILP dispatch optimisation, genetic algorithm sizing
optimization photovoltaic pysam concentrated-solar-power techno-economic-analysis thermal-energy-storage nrel-sam
Pysam module (python2.7) singularity container
Interactive desktop app for viewing sequencing coverage from BAM alignments
Cloud-based energy infrastructure modeling, simulation, and scenario-planning platform.
react flask laravel typescript simulation celery power-systems pandapower pvlib pysam pypsa osemosys scenario-planning energy-infrastructure
Exploratory analysis of chromosome 6 alignment quality and gene-span coverage across 16 samples, with a focus on MHC genes.
Per-position and summary statistics for BAM files
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