GffCompare: Program for processing GTF/GFF files
The program gffcompare can be used to compare, merge, annotate and estimate accuracy of one or more GFF files (the “query” files), when compared with a reference annotation (also provided as GFF).1756 days ago
Shouji: a fast and efficient pre-alignment filter for sequence alignment
The ability to generate massive amounts of sequencing data continues to overwhelm the processing capacity of existing algorithms and compute infrastructures. In this work, we explore th...1638 days ago
Best Practices for Variant Calling with the GATK
...he 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 Levy-Moonshine P...1528 days ago
Dahak: benchmarking and containerization of tools for analysis of complex non-clinical metagenomes.
...ools for metagenomic analyses. Tools in the dahak software suite will perform various steps in metagenomic analysis workflows including data pre-processing, metagenome assembly, taxonom...1481 days ago
FastProNGS: fast preprocessing of next-generation sequencing reads
FastProNGS to integrate the quality control process with automatic adapter removal. Parallel processing was implemented to speed up the process by allocating multiple threads. Compared with similar up-to-date preprocessing tools, FastProNGS is by far the fastest.1220 days ago
QuasR: Quantification and annotation of short reads in R
...kage aims to cover the whole analysis workflow of typical high throughput sequencing experiments, starting from the raw sequence reads, over pre-processing and alignment, up to quantifi...990 days ago
Fix rewritable error of ELGG !
...voked in httpd.conf or in .htaccess. The path generated by a rewrite rule can include a query string, or can lead to internal sub-processing, external request redirection...896 days ago
PhyloHerb: A high‐throughput phylogenomic pipeline for processing genome skimming data
...eral Public License Citation: Cai, Liming, Hongrui Zhang, and Charles C. Davis. 2022. PhyloHerb: A high‐throughput phylogenomic pipeline for processing genome‐skimming data. Applica...237 days ago