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pythseq's Projects

salsa icon salsa

SALSA: A tool to scaffold long read assemblies with Hi-C data

samba icon samba

Standardized and Automated MetaBarcoding Analyses workflow (Mirror)

sample icon sample

Performs memory-efficient reservoir sampling on very large input files delimited by newlines

samplot icon samplot

Plot structural variant signals from many BAMs and CRAMs

samsa2 icon samsa2

SAMSA pipeline, version 2.0. This version supports use on a local cluster using DIAMOND for annotations.

samtools icon samtools

Tools (written in C using htslib) for manipulating next-generation sequencing data

saqe icon saqe

Systematic Analysis for Quantification of Expression

saspector icon saspector

SASpector: a tool for analysis of missing regions in (bacterial) draft genomes

scalable-paql-queries icon scalable-paql-queries

This project contains the code for running experiments with the DIRECT and SKETCHREFINE algorithms presented in the paper: Matteo Brucato, Juan Felipe Beltran, Azza Abouzied, Alexandra Meliou: Scalable Package Queries in Relational Database Systems. PVLDB 9(7): 576-587 (2016)

scanpy icon scanpy

Single-Cell Analysis in Python. Scales to >1M cells.

scara icon scara

SCARA - scaffolding with long reads

scbatch icon scbatch

Batch Effect Correction of RNA-seq Data through Sample Distance Matrix Adjustment

scbayes icon scbayes

Bayesian probabilistic framework for single cell assignment to bulk DNA based subclones

scccess icon scccess

Single-cell Consensus Clusters of Encoded Subspaces

scelvis icon scelvis

:sparkler: SCelVis - web-based visualization of single-cell data. :arrow_right: :arrow_right: Demo :arrow_right::arrow_right:

scgid icon scgid

SCGid, a consensus approach to contig filtering and genome prediction from single-cell sequencing libraries

scipipe icon scipipe

Robust, flexible and resource-efficient pipelines using Go and the commandline

sciva icon sciva

R package and web-tool for interactive visualisation and analysis of single cell RNA-Seq data

scmatch icon scmatch

scMatch: a single-cell gene expression profile annotation tool using reference datasets

scoary icon scoary

Pan-genome wide association studies

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