Open NaotoKubota opened 7 months ago
Hi, I report a possible bug in getfasta. It seems -rna option does not work for plus strand record when setting -s option. Here is a test bed file (test.bed):
getfasta
-rna
-s
test.bed
chr3 89235292 89235302 test 0 + chr3 89235292 89235302 test 0 -
I ran the command:
bedtools getfasta -fi GRCm38.primary_assembly.genome.fa -bed test.bed -s -rna
the output was here:
>chr3:89235292-89235302(+) CTGTAGGAGG >chr3:89235292-89235302(-) CCUCCUACAG
The T in >chr3:89235292-89235302(+) are supposed to be U.
>chr3:89235292-89235302(+)
Could you please take a look into it? The version of bedtools I used was v2.30.0.
v2.30.0
Best,
Hello, I have the same issue, have you found a solution ? Thank you
Hi, I report a possible bug in
getfasta
. It seems-rna
option does not work for plus strand record when setting-s
option. Here is a test bed file (test.bed
):I ran the command:
the output was here:
The T in
>chr3:89235292-89235302(+)
are supposed to be U.Could you please take a look into it? The version of bedtools I used was
v2.30.0
.Best,