illumina-utils
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merenlab
A library and collection of scripts to work with Illumina paired-end data (for CASAVA 1.7+ pipeline).
Hello `rapidmerge.py` uses `multiprocessing.cpu_count()` to ge the number of available cpuswhich retruns the number of cpu in the machine. But this is not the same as the number of cpu...
Hi, I tried to do the installation of illumina-utils for anvio with pip-20.1. The following error came up. `Using cached illumina-utils-2.7.tar.gz (3.3 MB) ERROR: Command errored out with exit status...
Dear all, I am trying to use iu-demultiplex to work with those fastq files : https://github.com/caporaso-lab/mockrobiota/blob/master/data/mock-9/dataset-metadata.tsv but it's seems to no be FASTQ file generated by CASAVA 1.8, as iu-demultiplex...
See https://softwareengineering.stackexchange.com/questions/298677/why-is-universal-newlines-mode-deprecated-in-python/298685#298685 for more details
Dear developer, I am trying to demultiplex an Illumina run using iu-demultiplex, here is my command `iu-demultiplex -s SampleSheet-RC.txt --r1 lane1_NoIndex_L001_R1_001-13C.fastq.gz --r2 lane1_NoIndex_L001_R3_001-13C.fastq.gz --index lane1_NoIndex_L001_R2_001-13C.fastq.gz -o output/` But I got...
Hi Meren, There is a "compressed" parameter for fastq files, but I can't find one for fasta. Is it possible to add it or am I missing something?
Some methods are not compatible with Python3. For exemple : ``` iu-merge-pairs ^ SyntaxError: Missing parentheses in call to 'print' ```
If `--ignore-deflines` flag is used, the use of `--compute-qual-dicts` should throw an exception. Related to #3.
