Discover brwnj/covviz Open Source project by Joe Brown (@brwnj)

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Rank 557,107 (Top 12 %)
Language
HTML
License
MIT License
Created about 5 years ago
Updated about 1 year ago

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Multi-sample genome coverage viewer to observe large, coverage-based anomalies alongside annotations and sample metadata

bcl2fastq

NextSeq specific bcl2fastq2 wrapper.

Python

fastq-multx

Demultiplexes a fastq.

C++

umitools

Tools to handle reads sequenced with unique molecular identifiers (UMIs).

Python

idplot

compare sequences to a shared root reference sequence.

HTML

smoove-nf

Nextflow implementation of the smoove workflow and other tools for SV calling and QC

Python

fastq-join

Squared distance for anchored alignment joiner of ea-utils.

C++

freebayes-nf

a better freebayes-parallel

Nextflow

fqc

Extensible quality control dashboard built around FASTQ assessment.

JavaScript

covdist

simple coverage distribution profile of aligned samples. useful for sequencing center feedback and topoffs.

HTML

hundo

Amplicon processing protocols

Python

seqanno

Retrieves read counts originating at a given genomic sequence and allows further characterization.

Python

polya

scripts associated with identifying polya cleavage preference

Python

blastdbget

Download Blast databases from ftp.ncbi.nlm.nih.gov/blast/db, validate, and extract.

Python

repertoire

Pipelines for assembling and assessing T and B cell receptor repertoires.

Perl

relatively

📊 Plotly abundance figure with absolute and relative abundances across a hierarchy

Jupyter Notebook

binder

mybinder.org - open testing.

Jupyter Notebook

gdemux

demultiplex into groups (subsets) rather than individual sample files, by barcode

Python

brwnj/covviz

brwnj

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