Best Practices for Variant Calling with the GATK
...dine Van der Auwera PDF Video 03/19/15 Mapping, processing, and duplicate...tools Matt Sooknah PDF Video 03/19/15 Mapping and processing RNAseq Ami Le...Farjoun PDF Video 03/19/15 Genotype refinement Laura Gauthier PDF Video...1548 days ago
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CAT/BAT: tool for taxonomic classification of contigs and metagenome-assembled genomes (MAGs)
Contig Annotation Tool (CAT) and Bin Annotation Tool (BAT) are pipelines for the ta...tagenomics studies. The core algorithm of both programs involves gene calling, mapping of predicted ORFs against the...1462 days ago
SqueezeMeta: a fully automated metagenomics pipeline, from reads to bins
SqueezeMeta is a full automatic pipeline for metagenomic...characteristics: Co-assembly procedure with read mapping for estimation of the abundan...potential chimeras. Metatranscriptomic support via mapping of cDNA reads against referen...1371 days ago
URMAP, an ultra-fast read mapper
URMAP, a new read mapping algorithm. URMAP is an order of magnitude faster than BWA with comparable accuracy on several validation tests. On a Genome in a Bottle (GIAB) variant...1297 days ago
CoverM: Read coverage calculator for metagenomics
CoverM aims to be a configurable, easy to use and fast DNA read coverage and relati...ndividual contigs coverm contig (help). Calculating coverage by read mapping, its input can either be BAM...1115 days ago
Kmer: a suite of tools for DNA sequence analysis
More at https://help.rc.ufl.edu/doc/Kmer This also includes: A2Amapper: ATAC, Assembly to Assembly Comparision tool: Comparative mapping between two genome assemblies...1005 days ago
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Creating Genetic Maps from GBS data
Genetic map, as the name suggest is simply knowing the relative positions o...to create specific group of individuals of known ancestry is called as mapping population. Many types of mapping population exist. Here we wil...254 days ago