Illumina based assembly pipeline steps !
Illumina Merge re-sequenced FastQ files (cat) Read QC (FastQC) Adap...imer sequence removal (iVar; amplicon data only) Duplicate read marking...s and consensus; default for amplicon data || BCFTools, BEDTools; defaul...Primer trimming (Cutadapt; amplicon data only...890 days ago
Useful Bioinformatics Analysis Tools !
CoMeta Classificier of reads from metagenomic sequencing experiments....ce-saving solution for raw sequencing data, Bioinformatics, 20...k-mer-based compression of sequencing data, Scientific Reports,&nbs...i, L., Disk-based compression of data from...876 days ago
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List of comparative genomics resources !
3D-GENOMICS -- A Database to Compare Structural and Functional...coDing Orthologous Regions A database resource of developmental...arative Genometrics (CG) -- a database dedicated to biometric co...MBGD -- Microbial genome database for comparative analysis...hensive suite of programs and databases...690 days ago
Understanding DUMP files from NCBI Taxonomy database !
*.dmp files are bcp-like dump from GenBank taxonomy database General information. Fi...- node id in GenBank taxonomy database parent tax_id --...t node id in GenBank taxonomy database rank -- rank of t...this subtree has no sequence data yet comments -- free-...673 days ago
Interesting Bioinformatics Resources !
1. a reproducible workflow. https://www.youtube.com/watch?v=s3JldKoA0zw This...alse 3. Common-sense approaches to sharing tabular data alongside publication ht...ce/article/pii/S2666389921002300 4. A Reproducible Data Anal...554 days ago
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Common steps for reads mapping !
Mapping reads to a reference genome is an essential...that is appropriate for your type of data and research question. I...indexing tools. Prepare the read data: The reads should be in a for...pically involves specifying the input data, ref...436 days ago
Calculate the significance of the difference between two trends
To calculate the significance of the difference between two trends, you can use a...le H1 might be that there is a significant difference. Collect data on the two trends. Make sure that the data is i...431 days ago
Free Books on Machine Learning and Artificial Intelligent !
An Introduction to Statistical LearningThis book provides a broad and...wishes to use contemporary tools for data analysis. https://hastie.su....ains/ISLR2/ISLRv2_website.pdf Python Data Science HandbookYou’ll...aning, manipulating, and transforming data &mda...429 days ago