1561 days ago
New Machine Learning Packages in R
Machine Learning autokeras v1.0.1: Implements an interface to AutoKeras,...ling models and classifiers based on sparse matrix objects representing textual data. It includes implementations...1513 days ago
Useful links to therapy, disease, drug and drug-target network data:
Useful links to therapy, disease,...ource combining detailed drug data with comprehensive drug targe...Drug-Target Network: network data of 890 drugs and 394 target h...Thomson Investigational drugs database including information on...kr/~parkkw/Lnet/ TDR Targets Database: identification and rank...1447 days ago
Perl one-liner for beginners !
I often use the following arguments to perl: -e Makes the line of code be execut...txt > textwithoutuppercase.txt; Print only the second column of the data when using tabular as a separ...1394 days ago
10 NGS services companies around the globe !
The global NGS services market is expected to...s tools, pipelines and workflows, compute resources, data analysis reports, and case st...vides a variety of services such as oligo synthesis, database construction, genome rese...1272 days ago
Bioinformatics tools for telomere to telomere assembly !
● Merfin – k-mer-based ass...mation from raw, short-read sequencing data to genotype a wide spectrum o...scripts that can assess the quality of data and the preprocessing pipelin...and other low-complexity gene amplicon data; performs allele calling whil...1005 days ago
Protocol for De novo Genome Assembly using Illumina Reads
In this protocol, we address and describe the de novo as...lead to treatments for infectious diseases. Raw NGS dataReads can be saved as a Fasta...have and what the standard is like. If required, raw data cleanup/quality trimming. Cho...1217 days ago
Frequently used bioinformatics tools for viral genome analysis !
IVA: accurate de novo assembly of RNA virus genomes. Hunt M, Gall A, Ong SH, Brener...8-9 (2009). Trimmomatic: Trimmomatic: A flexible trimmer for Illumina Sequence Data. Bolger, A. M., Lohse, M. &am...1060 days ago
Basic Structure of Snakemake Pipeline Run !
/user/snakemake-demo$ ls config.json data envs scripts slurm-240702.out Snakefile data = mock data for the snakefile to use Snakefile = name of the snakemake “formula” file Note: The default...947 days ago
Illumina based assembly pipeline steps !
Illumina Merge re-sequenced FastQ files...rimer sequence removal (iVar; amplicon data only) Duplicate read marking...ts and consensus; default for amplicon data || BCFTools, BEDTools; defaul...y Primer trimming (Cutadapt; amplicon data only) Choice of multiple ass...890 days ago