slavailn

slavailn's Repositories

• slavailn/ATAC_seq_workflow_2020

  A workflow template for ATAC-seq

  Language:R

• slavailn/AWS_tutorial

• slavailn/helper_scripts

  Language:Perl

• slavailn/Hemp_RNAseq_workflow

• slavailn/HISAT2_featureCounts_mRNA_seq

  Make based mRNA-seq pipeline (QC, HISAT2, featureCounts). This is a gene level workflow for Single-End Illumina reads.

  Language:Makefile

• slavailn/Isoform_Switch_Analysis

• slavailn/mapping_with_STAR

  Read mapping with STAR (primer)

• slavailn/Metagenomics

  Metagenomics related notes and code snippets

• slavailn/PE_RNAseq_pipeline

  RNA-seq pipeline for paired-end reads. Implemented in bpipe

  Language:R

• slavailn/python_model

  Language:Python

• slavailn/python_training

  Working through python course, also notes for future reference

  Language:Python

• slavailn/R_tutorials

  Language:R

• slavailn/RNASEQ_SNV_CALLING

  A workflow to call SNVs using RNA sequencing reads

• slavailn/STAR_featureCounts_PE_mRNAseq

  A simple bpipe pipeline that maps paired-end reads downloaded from SRA archive to the reference genome

• slavailn/TB_Antibio_workflow

  Variant calling for M. tuberculosis followed by the detection of antibiotic resistance variants inspired by Phyresse

• slavailn/term_enrichment_scripts

  This repository contains R workflows designed to calculate and visualize term enrichment for lists of genes

  Language:R

• slavailn/terpene_synthase_project

  Detection of terpene synthase genes across Cannabis cultivars

  Language:Shell

• slavailn/trinnotate_workflow_example

  An example of Trinnotate workflow based on Cannabis CS10 genome assembly to serve as a reference for future use

• slavailn/useful_one_liners