Compare commits
2 Commits
1037d154e3
...
d71460a7dd
Author | SHA1 | Date |
---|---|---|
Hylke C. Donker | d71460a7dd | |
Hylke C. Donker | ef4a25f54b |
|
@ -8,7 +8,7 @@ GENOME_INDEX="${STORAGE}/genome_index"
|
|||
mkdir -p "${GENOME_INDEX}"
|
||||
# Store the generated `Aligned.sortedByCoord.out.bam` in this dir.
|
||||
ALIGNMENT_OUTPUT="${STORAGE}/alignment"
|
||||
mkdir -p "${ALIGNMENT_OUTPUT}"
|
||||
mkdir -p "${OUTPUT}"
|
||||
|
||||
# 1) Generate genome index.
|
||||
#
|
||||
|
@ -49,5 +49,5 @@ STAR \
|
|||
--readFilesCommand zcat \
|
||||
--readFilesIn "${R1}" "${R2}" \
|
||||
--outSAMtype BAM SortedByCoordinate \
|
||||
--genomeDir ${GENOME_INDEX} \
|
||||
--outFileNamePrefix "${ALIGNMENT_OUTPUT}"
|
||||
|
||||
|
|
Loading…
Reference in New Issue