Processing Your SNP file with Python:

abi

An Integrated Package for Bisulfite DNA Methylation Data Analysis with Indel-sensitive Mapping.

An Integrated Package for Bisulfite DNA Methylation Data Analysis with Indel-sensitive Mapping.

Denove Prokaryotic Genome with Spader

Entrez Direct: E-utilities on the UNIX Command Line

Go Ontology protocols

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Tophat

transdecoder for translate your mRNA to protein

Trimmomatic is a java tool for cut and filter reads

Trinity RNA-seq is a de novo transcriptome assembly software that uses RNA-seq data to reconstruct transcript sequences and estimate expression levels. It allows for comprehensive analysis of gene expression and isoform diversity in non-model organisms without a reference genome. Who said this?

WGCNA introduction and Q&S

The Basic Local Alignment Search Tool (BLAST) finds regions of local similarity between sequences. The program compares nucleotide or protein sequences to sequence databases and calculates the statistical significance of matches. BLAST can be used to infer functional and evolutionary relationships between sequences as well as help identify members of gene families.