foriin

iSponsorBlockTV

SponsorBlock client for all YouTube TV clients.

Look4LTRs

Long Terminal Repeat Retrotransposon detection tool capable of finding recently nested LTR RTs de novo.

bed2_summary

get smallRNAseq summary in piclusters, transposons and genes from bed2 files generated by piPipes or other softwares

BATH

Better Alignments with Translated HMMER

scRNA_NB_comparison

Scripts to reproduce the analyses in the paper "Comparison and evaluation of statistical error models for scRNA-seq"

2017_2018-single-cell-RNA-sequencing-Workshop-UCD_UCB_UCSF

2017_2018 single cell RNA sequencing Workshop UCD_UCB_UCSF

LDhelmet

Software package for estimating fine-scale recombination rate.

ChimeraTE

A pipeline to detect chimeric transcripts derived from genes and transposable elements.

piSet

Spring

FASTQ compression

Shiny_BLAST

FriendsDontLetFriends

Friends don't let friends make certain types of data visualization - What are they and why are they bad.

pivotr

Excel's PivotTables in R

TSRexploreR

kaggle-code

A repository for some of the code I used in kaggle data science & machine learning tasks.

EDTA

Extensive de-novo TE Annotator

drosophila-transposons

Drosophila transposable element canonical sequences

TEtranscripts

A package for including transposable elements in differential enrichment analysis of sequencing datasets.

seqfilter

Filter fasta/fastq(.gz) files by ID and/or sequence length

piPipes

piRNA pipeline collection developed in the Zamore Lab and ZLab in UMass Med School