Ancient whole genome duplication (WGD) detection tools !
...190103.gff3.gzgunzip *.gz First conda activate wgdstart our analysis environment, and then start the an...file syn: Call I-ADHoRe 3.0 to use GFF files for collinearity analysis viz: draw histogram and density...1183 days ago
List of useful machine / ai learning resources !
ML cheatsheet ! https://github.com/remicnrd/ml_cheatsheet Visual AI / ML https://setosa.io/ev/ Simple and efficient tools for predictive data analysis https://scikit-learn.org/stable/1159 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, Bren...ome Biol. 5, R12 (2004). R: R: A language and environment for statistical comput...(2013). R Foundation for Statistical Computing, Vienna, Austria. URL http://www....1074 days ago
Bioinformatics tools for telomere to telomere assembly !
...le calling while detecting polymorphic sites within the sequences and removing potential chimeric sequence...sp;JumboDB – tool for de Bruijn graph construction (Anton Bankevich @AntonBankevich)● ...1019 days ago
Levenshtein and Damerau-Levenshtein distance !
...quo;c”, which will give us a Levenshtein Distance of 2.Edit Distance is very easy to implement, and it is a popular challenge during code interviews Additionally, some frame...978 days ago
971 days ago
Basic Structure of Snakemake Pipeline Run !
...would like to override that you can specify it following the -s snakemake -s snakefile.py envs = directory for storing the conda environments that the workflow wil...961 days ago
Classification of SARS-CoV2 Variant !
...ge: The variant should be transmitted from its original location to another "geographically distinct population"—say, another country or a province of a large and populous co...918 days ago
Illumina based assembly pipeline steps !
...assignment, mutation calling and sequence quality checks (Nextclade) Individual variant screenshots with...ort (PlasmidID) Assembly assessment report (QUAST) Present QC and visualisation for raw read, alig...904 days ago
Useful Bioinformatics Analysis Tools !
...2016; 6(33964): FaStore Compressor of FASTQ files. • Roguski, L., Ochoa, I., Hernaez, M., Deorowicz, S., FaStore - a space-saving solution for raw sequencing...891 days ago