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Questions tagged [multithreading]

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Trying to download a large number of files from ENA programmatically

I am downloading a large number of files from the ENA in Python using Multithreading. As an example, to be more concrete, I tried downloading 12 files simultaneously using 12 threads. I noticed that ...
An Ignorant Wanderer's user avatar
1 vote
2 answers
1k views

Chunk alignment in a name sorted bam for parallel processing

I have a bam file with 1 billion alignment reads of which there are 700 million unique reads. I want to split the alignments into chunks for parallel-processing. Multi-alignments of the same read ...
jerry00's user avatar
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7 votes
1 answer
864 views

Multithread fastq processing with kseq.h in C++11?

Background I am using the wonderful kseq.h as my fastq/fasta parser for a C++ project. My actual implementation uses something like this, where I am counting kmers ...
conchoecia's user avatar
  • 3,181