Software packages for next gen sequence analysis
Integrated solutions * CLCbio Genomics Workbench - de novo and reference assembly of Sanger...by aligning shotgun reads to the finished genome sequence. Highly repetitive elements are filtered out by ignoring...3271 days ago
Comprehensive list of visualization tools for biological pathways
The study of biological pathways is a key to understand the different processes inside a cell: proteins exert their function not in isolation but in a tightly controlled...2315 days ago
List of Bioinformatics Software Tools for Next Generation Sequencing
Commercial tools Strand NGS offers many different tools including alignment, RNA-Seq,...d for studying noncoding variants; integrates comprehensive set of noncoding elements, modeling their mutation coun...2937 days ago
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Genome Assembly Tools and Software - PART1 !!
The genome assemblers generally take a file of short sequence re...g a Reference Sequence The abundance of repeat elements in genomes can impede the ass...element assembler. It assembles the transposable elements directly from the raw reads....2714 days ago
Single Cell RNAseq data analysis tutorial !!
A major breakthrough (replaced microarrays) in the late 00’s and has been widely used since Measures the average expression level for each gene across...2379 days ago
Tools for bacterial whole genome annotation
RAST – Web tool (upload contigs), uses the subsystems in the SEED database...rect and inverted repeats, insertion sequences, transposons and other mobile elements. PGAP: NCBI has developed an...2360 days ago
PerlOneLiner for Bioinformatician
FILE SPACING------------ # Double space a fileperl -pe '$\="\n"...l -le 'print "a"x50' # Create a repeated list of elementsperl -le '@list = (1,2)x20; pr...gth "one-liners are great"' # Find the number of elements in an arrayperl -le '@array =...2330 days ago
List of visualization tools for network biology
Network analysis is any structured technique used to mathematically analyze a circuit (a “network” of interconnected components). The Network analy...2316 days ago
Computational resources for TE discovery and TE detection
Transposable Elements (TEs) to genome structure and evolution as well as their impact on genome sequencing, assembly, annotation and alignment has generated increasing interes...2302 days ago