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flemoine/sratoolkit

By flemoine

•Updated about 7 years ago

Sratoolkit 2.5.7 + aspera-connect 3.6.2

Image
3

2.1K

flemoine/sratoolkit repository overview

⁠This container contains the tools:
  • sratoolkit
  • aspera-connect
⁠To download a sra file (SRR628588.sra for example) :
docker run -v $PWD:/mnt -ti flemoine/sratoolkit \
   /bin/bash -c 'ascp -i $ASCPKEY -k 1 -T -l300m \
   [email protected]:/sra/sra-instant/reads/ByRun/sra/SRR/SRR628/SRR628588/SRR628588.sra /mnt/'
⁠To convert the sra file into two Fastq files
docker run -v $PWD:/mnt -ti flemoine/sratoolkit /bin/bash -c \
    'fastq-dump --gzip --split-files /mnt/SRR628588.sra -O /mnt/'

Tag summary

Content type

Image

Digest

Size

191.1 MB

Last updated

about 7 years ago

docker pull flemoine/sratoolkit