Dockerfile for the Albacore basecaller from Oxford Nanopore
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Daniel Vera
Daniel Vera Update Dockerfile
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Dockerfile Update Dockerfile May 12, 2017
LICENSE Initial commit Feb 16, 2017
README.md Update README.md May 12, 2017

README.md

albacore

Dockerfile for the Albacore basecaller from Oxford Nanopore

usage

cd into the directory containing the reads directory

docker run -v $PWD:$PWD -w $PWD -u $UID \
vera/albacore \
--recursive \
-t $(nproc) \
-i reads \
-c /opt/albacore/r94_450bps_linear.cfg \
-s output \

Available flowcell + kit combinations are:

flowcell kit barcoding config file
FLO-MIN106 SQK-LSK108 r94_450bps_linear.cfg
FLO-MIN106 SQK-LSK208 r94_250bps_2d.cfg
FLO-MIN106 SQK-LWB001 included r94_450bps_linear.cfg
FLO-MIN106 SQK-LWP001 r94_450bps_linear.cfg
FLO-MIN106 SQK-RAB201 included r94_450bps_linear.cfg
FLO-MIN106 SQK-RAD002 r94_450bps_linear.cfg
FLO-MIN106 SQK-RAS201 r94_450bps_linear.cfg
FLO-MIN106 SQK-RBK001 included r94_450bps_linear.cfg
FLO-MIN106 SQK-RLB001 included r94_450bps_linear.cfg
FLO-MIN106 SQK-RLI001 r94_450bps_linear.cfg
FLO-MIN106 SQK-RNA001 r94_70bps_rna_linear.cfg
FLO-MIN106 VSK-VBK001 r94_450bps_linear.cfg