brwnj/repertoire brwnj/repertoire

  • Stars
    star
    2
  • Language
    Perl
  • License
    MIT License
  • Created over 11 years ago
  • Updated over 10 years ago
Twitter logo Share LinkedIn logo Share Facebook logo Share
brwnj/repertoire
github

brwnj

Reviews

There are no reviews yet. Be the first to send feedback to the community and the maintainers!

Repository Details

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

More Repositories

1

bcl2fastq

NextSeq specific bcl2fastq2 wrapper.
Python
52
star
2

covviz

Multi-sample genome coverage viewer to observe large, coverage-based anomalies alongside annotations and sample metadata
HTML
51
star
3

fastq-multx

Demultiplexes a fastq.
C++
37
star
4

umitools

Tools to handle reads sequenced with unique molecular identifiers (UMIs).
Python
30
star
5

idplot

compare sequences to a shared root reference sequence.
HTML
22
star
6

smoove-nf

Nextflow implementation of the smoove workflow and other tools for SV calling and QC
Python
12
star
7

fastq-join

Squared distance for anchored alignment joiner of ea-utils.
C++
9
star
8

freebayes-nf

a better freebayes-parallel
Nextflow
6
star
9

fqc

Extensible quality control dashboard built around FASTQ assessment.
JavaScript
4
star
10

covdist

simple coverage distribution profile of aligned samples. useful for sequencing center feedback and topoffs.
HTML
4
star
11

hundo

Amplicon processing protocols
Python
3
star
12

seqanno

Retrieves read counts originating at a given genomic sequence and allows further characterization.
Python
3
star
13

polya

scripts associated with identifying polya cleavage preference
Python
3
star
14

blastdbget

Download Blast databases from ftp.ncbi.nlm.nih.gov/blast/db, validate, and extract.
Python
2
star
15

relatively

📊 Plotly abundance figure with absolute and relative abundances across a hierarchy
Jupyter Notebook
1
star
16

binder

mybinder.org - open testing.
Jupyter Notebook
1
star
17

gdemux

demultiplex into groups (subsets) rather than individual sample files, by barcode
Python
1
star