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Bamsurgeon downloaded 20/05/2022. Using pysam 0.19.0 py39h5030a8b_0 from bioconda. Below last log lines before crash. Inputing variants to ultradeep BAM file with mean x500
INFO 2022-05-20 02:16:51…
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Hi everyone,
I was analysing amplicon reads from 16s V3-V4, using 341F-806R primer set. The quality of the reads are fairly good:
![image](https://github.com/user-attachments/assets/0dcf3987-3bbc-…
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Following up on a discussion I had with @nickp60 earlier on whether or not we should retune the `bbduk` parameters during trimming (given that we have some reads that look like adapter/empty sequence …
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### Description of bug
when i run command for genome assembly spades. py -1 (forward seq) -2 (reverse seq) -o output_directory after sometimes running it shows this error
"== Error == system cal…
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Hello, I'm currently working on some 16S sequences of whale microbiomes, they were sequenced with Illumina, V4 region, and I´ve been familiar only with V3V4, so I don't know if this quality and at the…
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obsolete cell migration behavioral quality of a process, abnormal
obsolete obsolete polysome whole organism decreased amount, abnormal
obsolete obsolete DNA methylation on cytosine decreased occur…
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Currently seqkit seq filters by quality based on an average quality score. However, other tools such as FASTX's fastq_quality_filter, allow the user to select how many nucleotides (as a percentage) he…
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I have forward and reverse FASTQ files from Illumina paired-end sequencing, and I'm merging these reads using `vsearch`, which works great. However, I need to filter the reads based on a quality score…
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I would like to propose adding the option to use the "Fast Optimal Global Sequence Alignment Algorithm" (FOGSAA) [1] both for pairwise and multiple sequence alignments. Given that FOGSAA provides alig…
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Dear,
When I run sortmerna on paired-end files, the output file contains reads, where the length of the sequence and relevant quality line doesn't match. Here is one example:
![image](https://…