Pinned Repositories
Algorithms_Example
List of Algorithms
geneLift
Gene model transfer from closely related reference genomes using cDNA alignments
srividya22's Repositories
srividya22/Artificial-Neural-Networks
srividya22/canu
A single molecule sequence assembler for genomes large and small.
srividya22/catalog
A dynamic catalog of KBase functionality that can also build/deploy modules automatically
srividya22/cheatsheets-ai
Essential Cheat Sheets for deep learning and machine learning researchers
srividya22/chromhmm-enhancers-umel
Identify enhancers. Includes data download, liftover, parallelized workflows, results aggregation, and example output.
srividya22/copycat
Copycat is a simple script to capture and bin the read coverage across a genome from a bam file of read alignments. It relies on bedtools to get coverage for each individual nucleotide in the genome using bedtools genomecov, then bins and organizes these coverage values into 10kb bins and outputs the coverage information in a .csv format (for upload to SplitThreader) and in a .seg format (for viewing the copy number profile in IGV)
srividya22/datasketch
MinHash, LSH, LSH Forest, Weighted MinHash, HyperLogLog, HyperLogLog++
srividya22/GenoToolBox
A box of genomics tools
srividya22/Graph_algorithms
srividya22/kb_cummerbund
srividya22/narrative
srividya22/narrative_method_specs
srividya22/Nchart
Creates an N-chart for comparing assembly lengths, including script for counting assembly lengths from a fasta file
srividya22/organelle_assembler
srividya22/Pandas_snippets
srividya22/python-machine-learning-book
The "Python Machine Learning" book code repository and info resource
srividya22/resume_building
Web pages for website
srividya22/RNA-seq-analysis
RNAseq analysis notes from Tommy Tang
srividya22/rnaseq-scripts
srividya22/rnaseq_tutorial
Informatics for RNA-seq: A web resource for analysis on the cloud. Educational tutorials and working pipelines for RNA-seq analysis including an introduction to: cloud computing, critical file formats, reference genomes, gene annotation, expression, differential expression, alternative splicing, data visualization, and interpretation.
srividya22/schatzlab.github.io
Source materials for schatzlab.github.io
srividya22/sge_mummer
Scripts to split reference and run mummer in parallel on an SGE cluster
srividya22/simple-contig-joiner
Stitch contigs together and fill gaps with reference
srividya22/Suffix-Arrays
Algorihms about Suffix Array Construction, Suffix Tree, Longest Common Prefix, Burrows Wheeler Transform,
srividya22/Sushi
Tools for visualizing genomics data
srividya22/Teaser
A tool to benchmark mappers and different parameters within minutes
srividya22/Topsorter
Graphical assessment of SVs using 10x genomics data
srividya22/travelapp
srividya22/travelappv2
srividya22/viper-rnaseq