User: vitorgomesbio

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Posts by vitorgomesbio

<prev • 6 results • page 1 of 1 • next >
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Problem in Sequence Length Distribution
... Hi! Good Afternoon I think I'm having some trouble with my sequences. I have an Escherichia coli genome and the sequences have very dissimilar sizes. Should I do something specific during my trial in this case? https://drive.google.com/file/d/1TfgBQPJR2AcyJIicwJQEP8d_lBs_92Nb/view?usp=sharing T ...
trimmomatic quality sequence lenght fastqc written 11 months ago by vitorgomesbio0
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Threshold Quality Default Number
... I just want to know why the default value for the LEADING: Cut bases off the start of a read, if below a threshold quality and TRAILING: Cut bases off the end of a read, if below a threshold quality is 3. What happens if I change this number? Where I can find some information about base quality? ...
trimmomatic leading quality control threshold written 13 months ago by vitorgomesbio0 • updated 13 months ago by finswimmer13k
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(Closed) Per base sequence content
... Good afternoon! I'd like some help in a problem I have been facing in trimming my sequenced genome. Even after using the value of 3 for the LEADING and TRAILING, the FASTQC webpage keeps showing a error message. Is there anything that can be done to solve this problem? ![enter image description he ...
trimmomatic per base sequence content trimming written 14 months ago by vitorgomesbio0 • updated 12 months ago by Biostar ♦♦ 20
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Comment: C: Thousands of contigs in E.coli assembly
... For example, the first contig of one of my genomes resulted in several alignments. The first one was this: Select seq CP003295.1 Streptococcus infantarius subsp. infantarius CJ18, complete genome 48348 (max score) 72062 (total score) 99% (query cover) 0.0 (E.value) 96% (Ident) can I infer tha ...
written 15 months ago by vitorgomesbio0
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Comment: C: Thousands of contigs in E.coli assembly
... Thank you! I trimmed my sequences using the Trim Galore tool. Each one of the eleven genomes presented thousands of contigs even after triming. Is there any problem going on then? ...
written 15 months ago by vitorgomesbio0
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Thousands of contigs in E.coli assembly
... Hi! I recently started to study bioinformatics and need help. I assembled and annotated eleven bacterial genomes. After the annotation, I came across thousands of contigs. When I ran BLASTn, I realized that each contig made many different alignments. How can I identify the correct strain of my bac ...
genome assembly contigs prokka written 15 months ago by vitorgomesbio0 • updated 15 months ago by Biostar ♦♦ 20

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