OMTools: a software package for visualizing and processing optical mapping data
...sing and visualization suite to handle and explore large-scale optical mapping profiles. OMTools includes mo...odules together form an accessible and convenient pipeline for optical mapping analyses. https://github.com...1878 days ago
FUMA GWAS: Functional Mapping and Annotation of Genome-Wide Association Studies
FUMA is a platform that can be used to annotate, prioritize, visualize and interpret GWAS results. The SNP2GENE function takes GWAS summary statistics as...1814 days ago
jackalope: A swift, versatile phylogenomic and high-throughput sequencing simulator
...simulate single, paired-end, or mate-pair Illumina reads, as well as reads from Pacific Biosciences These simulations include sequencing errors, mapping qualities, multiplexing, and...1759 days ago
MGSE: Mapping-based Genome Size Estimation
MGSE can harness the power of files generated in genome sequencing projects to predict the genome size. Required are the FASTA file containing a high continuity assembl...1584 days ago
Kevler: Reference-free variant discovery in large eukaryotic genomes
Welcome to kevlar, software for predicting de novo genetic variants without mapping reads to a reference genome! kevlar's k-mer abundance based method calls single...1573 days ago
MALVA: Genotyping by Mapping-free ALlele Detection of Known VAriants
MALVA is able to genotype multi-allelic SNPs and indels without mapping reads MALVA calls correctly more indels than the most widely adopted genotyping pipelines Mapping-free approaches are as accura...1573 days ago
Understanding your reads and mapping !
One of the best tutorial for beginners ... https://bioinformatics-core-shared-training.github.io/cruk-summer-school-2017/Day1/Session4-seqIntro.html1572 days ago
LoFreq*: A sequence-quality aware, ultra-sensitive variant caller for NGS data
...nd indels from next-generation sequencing data. It makes full use of base-call qualities and other sources of errors inherent in sequencing (e.g. mapping or base/indel alignment uncer...1552 days ago
Best Practices for Variant Calling with the GATK
...ction to the GATK Geraldine Van der Auwera PDF Video 03/19/15 Mapping, processing, and duplicate marking with Picard tools Matt Sooknah PDF Video 03/19/15 Mapping and processing RNAseq Ami Le...1548 days ago
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