Comments (2)
Can you provide the exact arguments you used to run Bowtie 2?
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Haven't heard anything so will close for now. Please reopen/comment if you continue to have this issue
from bowtie.
Related Issues (20)
- bowtie 1.3.0 generated sam files error HOT 11
- Migrate Travis CI by May 31, 2021
- bowtie install error on Apple M1 HOT 1
- Mismatch flag
- Bowtie hangs when running on very large genomes HOT 8
- -M option reports the wrong number of reads processed HOT 2
- problem with option -n and -l
- XM:i SAM Optional field ... seems like hits + 1 for all hits? HOT 3
- Bowtie no longer works with updated versions of tbb
- Error: reads file does not look like a FASTQ file HOT 2
- Bowtie not mapping 100% HOT 1
- -m setting not outputting a sam file with an -NH tag
- Questions about tracking the history of building index
- Some reference entries show up as duplicates HOT 1
- Cline paired 2 (fw:1, sam:1) test aborted with -Wp,-D_GLIBCXX_ASSERTIONS HOT 4
- Is there an equivalent of "Bowtie2 --very-sensitive" for Bowtie1 [suggested label = Question]
- Compatibility of Bowtie1 (v1.2.0 or later) with Tophat2 HOT 1
- secondary alignment flag
- bowtie alignmnet produces sam bam files sizes for different fastq files
- bowtie for short reads HOT 1
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