Frequently used bioinformatics tools for viral genome analysis !
IVA: accurate de novo assembly of RNA virus genomes. Hunt M, Gall A, Ong SH, Brener J, Ferns B, Goulder P, Nastouli E, Keane JA, Kellam P, Otto TD. Bioinformatics. 2015...1095 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 &ldquo...982 days ago
Illumina based assembly pipeline steps !
Illumina Merge re-sequenced FastQ files (cat) Read QC (FastQC) Adapter trimming (fa...nt annotation (SnpEff, SnpSift) Consensus assessment report (QUAST) Lineage analysis (Pangolin) Clade assignment,...925 days ago
Useful Bioinformatics Analysis Tools !
CoMeta Classificier of reads from metagenomic sequencing experiments. • Kawulok, J., Deorowicz, S., CoMeta: Classification of Metagenomes Using k-...911 days ago
List of comparative genomics resources !
3D-GENOMICS -- A Database to Compare Structur...nomes Conduct comparative biometric analysis of chromosomes of different o...s/Metagenomes A data management and analysis system for metagenomes I...ams of phylogenetic and evolutionary analysis. PhyloPat -- the phyloge...725 days ago
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Tools for Differential expression analysis
apeglm - https://bioconductor.org/packages/release/bioc/html/apeglm.html ashr - https://github.com/stephens999/ashr, https://cran.r-project.org...592 days ago
Interesting Bioinformatics Resources !
1. a reproducible workflow. https://www.youtube.com/wat...cle/pii/S2666389921002300 4. A Reproducible Data Analysis Workflow with R Markdown, Git...utational workflows is automated using continuous analysis https://www.nature.com/a...589 days ago
Bioinformatics tools to explore SSRs in genomes !
There are several bioinformatics tools that can be used to explore Simple Sequence Repea...search questions, you may find that other tools are more appropriate for your analysis.473 days ago
Chromosome breakpoint - a breakup to remember
Chromosome breakpoint refers to the physical location where a chromo...akpoints can be detected using a variety of techniques, including cytogenetic analysis, fluorescence in situ hybridi...473 days ago