SeqMule: Automated human exome/genome variants detection
SeqMule takes single-end or paird-end FASTQ or BAM files, generates a script consisting of more than 10 popular alignment, analysis tools and runs the script line by line. Users can change the pipeline or fine-tune the parameters by modifying its configuration file.1543 days ago
1512 days ago
Genobuntu: Package for Next Generation Sequencing and Genome Assembly
Genobuntu is a software package containing more than 70...novo Maq IDBA-UD No. of Reads present in the Ref. Seq. ART NGS Reads Simulator Hi...EC, FASTQC Minimum Description Length SOAPaligner Sequencing Read Archive Toolkit...1453 days ago
RNA-Bloom: a fast and memory-efficient de novo transcript sequence assembler
RNA-Bloom is a fast and memory-efficient de novo transcript sequence assembler. It is designed for the following sequencing data types: single-...cific/agnostic) paired-end single-cell RNA-seq (strand-specific/agnostic) n...1401 days ago
SEASTAR: Systematic Evaluation of Alternative STArt site in RNA
SEASTAR (Systematic Evaluation of Alternative STArt site in RNA) is a so...Start Site (TSS) identification and quantification using only RNA-seq data. It assembles novel TSSs based only on RNA-Seq data and merges them with kno...1366 days ago
proActiv: Estimation of Promoter Activity from RNA-Seq data
proActiv is an R package that estimates promoter activity from RNA-Seq data. proActiv uses aligned reads and geno...1366 days ago
DnaSP: DNA Sequence Polymorphism, is a software package for the analysis of DNA polymorphisms
DnaSP, DNA Sequence Polymorphism, is a software pack...data from a single locus (a multiple sequence aligned -MSA data), or f...rmats generated by some assembler RAD-seq software). DnaSP can estimate...odon positions), as well as linkage disequilibrium, recombination, gene...1261 days ago
MAGIC: A tool for predicting transcription factors and cofactors driving gene sets using ENCODE data
The algorithm presented herein, Mining Algorithm...p;GenetIc Controllers (MAGIC), uses ENCODE ChIP-seq data to look for statistical...in a particular neuronal subtype 4) Single cell RNAseq analysis of neurons divided b...1261 days ago
Applied Computational Genomics Course at UU: Spring 2020
This course will provide a comprehensive introduction to fundamental con...ies. A diverse range of biological questions enabled by modern DNA sequencing technologies will be explored including sequence alignment, the identific...1234 days ago
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