Paolo onertipaday
mtmorgan
/ readKallisto.R
Last active
December 4, 2017 11:51
read kallisto RNA-seq quantification into R / Bioconductor data structures
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| .require <- | |
| function(pkg) | |
| { | |
| withCallingHandlers({ | |
| suppressPackageStartupMessages({ | |
| require(pkg, character.only=TRUE, quietly=TRUE) | |
| }) | |
| }, warning=function(w) { | |
| invokeRestart("muffleWarning") | |
| }) || { |
dgrtwo
/ barcode_splitter.py
Created
September 15, 2012 00:21
Barcode splitter for fastq sequencing files that splits using Levenshtein distance.
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| """ | |
| barcode_splitter.py | |
| Barcode splitter for fastq sequencing files, that matches using Levenshtein | |
| distance. | |
| USAGE: | |
| python barcode_splitter.py reads.fastq index_reads.fastq barcodes.txt |
davidliwei
/ getinsertsize.py
Last active
October 25, 2022 06:15
Estimating NGS paired-end read insert size (or fragment length) from SAM/BAM files
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| #!/usr/bin/env python | |
| ''' | |
| Automatically estimate insert size of the paired-end reads for a given SAM/BAM file. | |
| Usage: getinsertsize.py <SAM file> or samtools view <BAM file> | getinsertsize.py - | |
| Author: Wei Li | |
| Copyright (c) <2015> <Wei Li> | |