WisecondorX — An evolved WISECONDOR
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Updated
Apr 24, 2024 - Python
WisecondorX — An evolved WISECONDOR
is an open-source LIMS (laboratory Information Management System) for Next Generation Sequencing sample management, statistics and reports, and bioinformatics analysis service management.
Genomic interval operations on Pandas DataFrames
Publication quality NGS track plotting
HemTools: a collection of NGS pipelines and bioinformatic analyses
Project Manager for NGS data analysis
生物信息学分析中用到的脚本
A toolkit for NGS analysis with Python
RNA-seq pipeline for raw sequence alignment and transcript/gene quantification.
The ChIP-Seq peak calling algorithm using convolution neural networks
A tool to archive and co-locate NGS data with project-level, sample-level, and analysis-specific metadata.
Multisample DNAseq variant calling pipeline for use in diagnostics
Tools for analyzing NGS sequence data and aligned protein sequences
Mobile Element Insertion Breakpoint Analyzer (MEIBA)
ViroConstrictor is a pipeline designed to process raw FastQ data from viral amplicon-based sequencing and generate biologically correct consensus sequences of the given viral genome
NGSimulator is a tool to benchmark variant callers. It generates reads simulating sequencing errors such as insertion, deletion, and substitution with variants at user-defined positions.
Python code to compute adatper content in reads, kmer content, per-base-GC content (at a specific position in a read alignment, against reference genome), per base NC content (at a specific position in a read alignment against the reference genome), per base seq quality (across aligned reads), per base sequence content, per base quality scores, …
Coverage graph creator from BAM files (included in the SSV-Conta package)
Sequence Matching fOr REpiratory Diseases, SMORE'D, is a command-line sequence classification tool tailored to meet the needs of the Undiagnosed Respiratory Disease Outbreak (URDO) branch at CDC. SMORE'D is a k-mer based classification tool capable of rapidly classifying read sequences generated by multi-pathogen detection platforms.
Flexible analysis of high-content CRISPR screening
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