noamteyssier

Noam Teyssier's repositories

adpbulk

pseudobulking on an AnnData object

Language:PythonMIT34 2 8

ggetrs

Efficient querying of biological databases

Language:RustMIT34 2 118

paraseq

A minimal copy fastq and fasta reader built for parallel support and paired end processing

Language:Rust11 1 1

sgcount

A flexible and fast sgRNA counter from FASTQ Files

Language:Rust9 2 42

ibu

a rust library for high throughput binary encoding of genomic sequences

Language:Rust8 10

crispr_screen

Efficient Differential Expression and Gene Aggregation for CRISPR screens.

Language:RustMIT7 1 93

seq_io_parallel

a map-reduce parallel processing extension for seq_io

Language:Rust6 1 5

idea

Integrated Differential Expression and Annotation

Language:HTMLMIT4 1 15

yaflux

A lightweight, declarative framework for Python analysis workflows.

Language:PythonMIT3 1 28

alpha-rra

an implementation of αRRA for aggregating grouped p-values

Language:RustMIT2 1 17

cshift

A tool to perform cluster enrichment/depletion analyses

Language:PythonMIT2 1 6

fxtools

a collection of CLI utilities for processing fasta/fastq (FASTX) files.

Language:RustMIT2 1 40

geomux

hypergeometric testing of guide RNA identity to assign cell barcodes to a guide identity

Language:PythonMIT2 1 23

screenviz

crispr screen visualization toolkit

Language:PythonMIT2 1 11

bitnuc

A library for efficient nucleotide sequence manipulation using 2-bit encoding

Language:Rust1 1 11

bitnuc-mismatch

Create unambiguous one-off mismatch hash tables from bitnuc scalars

Language:Rust1 1 1

muxsim

a python module for generate cell / guide matrices for demultiplex testing

Language:PythonMIT1 10

nucgen

A fast and simple configurable fast[aq] generator

Language:Rust1 10

10x_whitelist_mirror

A mirror of the 10X whitelists

010

10x_cropseq_nextflow

a nextflow pipeline for 10X sequencing CROPSeq

Language:NextflowMIT000

bootstrap_analysis_invivo_crispr_screen

an analysis for estimating the stability of hits and how many mice are required to recover those hits

Language:Jupyter NotebookMIT000

disambiseq

Create unambiguous one-off mismatch libraries for DNA sequences

Language:RustMIT01 1

fxread

a fastx reader

Language:Rust01 19

geopagg

geometric p-value aggregation for gene-groups

Language:Rust01 8

intc

an implementation of the *-INC method to calculate an empirical FDR for non-targeting controls in CRISPR screens

Language:Rust01 13

noamteyssier

010

paraseq_benchmark

a benchmark of fastq processing

Language:Jupyter Notebook010

pbsim3

PBSIM3: a simulator for all types of PacBio and ONT long reads

Language:C++GPL-2.0000

seq_io

FASTA and FASTQ parsing in Rust

Language:RustMIT000

uv

An extremely fast Python package and project manager, written in Rust.

Language:RustApache-2.0000