Results for "benchmarking and designing tools"
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Collectively, the bedtools utilities are a swiss-army knife of tools for... count, complement, and shuffle genomic inter...cted by combining multiple bedtools operations on the UNIX command line. bedtools is develop...2632 days ago
FinisherSC: a repeat-aware and scalable tool for upgrading de novo assembly using long reads
FinisherSC, a repeat-aware and scalable tool for upgrading de novo assembly using long reads. Experiments with real data suggest that FinisherSC can provide longer and higher quality contigs than existing tools while maintaining high concordance.2629 days ago
splitbam: splits a BAM by chromosomes
splitbam splits a BAM by chromosomes. Using the reference sequence dicti...o be added to those empty BAMs to avoid some tools (like samtools) to crash. Usage java -jar...) REQUIRED. MUST contain __CHROM__ and end with .bam -s assume input...2628 days ago
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...gram showing intersection among different callers, and downloading databases. SeqMule...2621 days ago
Pacbio Long Reads Compatible Software and Tools
The following software packages are known to be compatible with PacBio® data, in addit...riations Detection Reference-based alignment Consensus and variant calling RNA analysis Epigenetic base modifications and m...2612 days ago
- Krona allows hierarchical data to be explored with zooming, multi-layered...created using an Excel template or KronaTools, which includes support for several bioinformatics tools and raw data formats. The interactive charts are self-contained and can be viewed with any modern w...
2606 days ago
gbtools: Interactive Visualization of Metagenome Bins in R
We have developed gbtools, a software package that allows users to...tting coverage (sequencing depth) and GC values of contigs, and also...imported from third-party binning tools and overlaid onto plots, such that...s can be compared side-by-side. gbtools reports summary statistics of...2601 days ago
- Lifemap is an interactive tool to explore the WHOLE NCBI TAXONOMY. The...r to the one used in cartography with tools like Google Maps© or O...et Maps: exploring is done by zooming and panni...ding 10,545 Archaea, 418,777 Bacteria and 705,847 Eukaryotes. The Lifemap...
2587 days ago
- DIAMOND is a sequence aligner for protein and translated DNA searches and functions as a drop-in replacement for the NCBI BLAST software tools. It...as well as DNA-protein search on short reads and longer sequences including cont...
2570 days ago
Enrichr: a comprehensive gene set enrichment analysis
Enrichment analysis is a popular method for analyzing gene sets generat...nt a significant update to one of the tools in this domain called Enric...set libraries available for analysis and downl...ved application programming interface and visualization of the results as...2570 days ago
