# Tag Info

Accepted

### Why does a very strong BLAST hit get lost when I change num_alignments, num_descriptions or max_target_seqs parameter?

I'm trying to figure out why. This will be a longer read, Tl;dr at the end: Doing a match There is a good match of Q against ...
• 391

### Delete all 4 lines of a fastq read from a fastq file using read ID

Don't do it: Your FASTQ file is either malformed or your FASTQ record spans more than four lines, which is allowed in FASTQ. For a detailed description of what can go wrong in FASTQ parsing see for ...
• 2,096
Accepted

### How do I find identical sequences in a FASTA file?

The trick would be to swap the key in the dictionary to be the sequence itself. Also I would recommend using a different separator that "_" since that is what the current ids have so that you can ...
• 2,576

### Filtering step for read counts data

If you have your counts in a data.frame called counts, something like this might work: ...
• 3,551

### Delete all 4 lines of a fastq read from a fastq file using read ID

If you are 100% sure the read only has 4 lines (they can have more), you can use this sed command: ...
• 8,161
Accepted

### How can longest isoforms (per gene) be extracted from a FASTA file?

While the solution from https://bioinformatics.stackexchange.com/users/96/daniel-standage should work (after adjusting for possible python3 incompatibility), the following is a shorter and less memory ...
• 19.2k

### Fast processing of fastq data

Knowing a high-performance language will make a huge difference here. See the example below in C. I haven't tested, but it should be easy to modify for your purpose. C++, Rust, Go, Nim and Julia can ...
• 5,764
Accepted

### How to safely and efficiently convert subset of bam to fastq?

I'm not aware of any pre-made program to do this, so I wrote one for you. This will take a BAM file with any ordering and produce properly ordered gzipped fastq files with the filtering as you ...
• 19.2k