User: 乙

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Posts by 乙

<prev • 62 results • page 1 of 7 • next >
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Comment: C: Is there a tool to find the correct percentage of duplication levels in FastQ ?
... Could you please give an example of the commandline to produce the counts in the fastq header ? ...
written 7 weeks ago by 160
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Comment: C: Is there a tool to find the correct percentage of duplication levels in FastQ ?
... Yes, you are right, thanks for the information ! ...
written 12 weeks ago by 160
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Comment: C: Is there a tool to find the correct percentage of duplication levels in FastQ ?
... If I understood correctly, you mean to run `bbduk.sh` and generate the deduplicated `FastQ_dedup_file`. Then, count the number of reads before for `FastQ_file` and do something like `(number of reads FastQ_dedup_file / number of reads FastQ_file) * 100`. Is this correct ? ...
written 12 weeks ago by 160
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Comment: C: Is there a tool to find the correct percentage of duplication levels in FastQ ?
... What if the k-mer length is variable ? You know that demultiplexing does not generate equal reads length and that sometimes smaller reads may exist. Normally, they should be taken into account even if the percentage of those reads are fairly low, no ? ...
written 12 weeks ago by 160
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Comment: C: Is there a tool to find the correct percentage of duplication levels in FastQ ?
... Thanks for the answer but `MarkDuplicates` takes as input `BAM` or `SAM` files and not `FastQ`. ...
written 12 weeks ago by 160
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Is there a tool to find the correct percentage of duplication levels in FastQ ?
... Hello, I would like to know if there are any tools available to find the correct percentage of duplication levels in FastQ files ? Currently, I am using [FastQC][1]. However, FastQC gives an estimation. From FastQC [manual][2]: > To cut down on the memory requirements for this module only sequ ...
fastq sequencing written 12 weeks ago by 160 • updated 12 weeks ago by genomax89k
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Comment: C: Is it possible to get the Codons for an intron/splice mutation given the chromos
... @Pierre thanks for the note, I deleted the post there. ...
written 3 months ago by 160
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Is it possible to get the Codons for an intron/splice mutation given the chromosome and position?
... Hello, I have annotated my `VCF` files using `VEP` from Ensembl. I have obtained the following lines (please copy paste them in a file for a better view): CHROM POS REF ALT QUAL DP Consequence IMPACT SYMBOL Gene Feature_type Transcript Transcript_version BIO ...
codons introns written 3 months ago by 160
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Comment: C: Is it possible to get convert all NC_ to NP_ for RefSeq ?
... Thank you both for your answers ! ...
written 4 months ago by 160
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Comment: C: Is it possible to get convert all NC_ to NP_ for RefSeq ?
... Thank you !! Is it possible to pass a text file ? I have a very big list. ...
written 4 months ago by 160

Latest awards to 乙

Popular Question 5 weeks ago, created a question with more than 1,000 views. For Overlap of variants between CaVEMan and MuTect2 ?
Popular Question 7 months ago, created a question with more than 1,000 views. For Overlap of variants between CaVEMan and MuTect2 ?
Popular Question 16 months ago, created a question with more than 1,000 views. For Overlap of variants between CaVEMan and MuTect2 ?
Popular Question 16 months ago, created a question with more than 1,000 views. For [solved] SnpEff reports intron variants in exons ?
Popular Question 17 months ago, created a question with more than 1,000 views. For Using Circos plot to visualize RNA-seq data
Supporter 18 months ago, voted at least 25 times.
Popular Question 18 months ago, created a question with more than 1,000 views. For [solved] SnpEff reports intron variants in exons ?
Popular Question 20 months ago, created a question with more than 1,000 views. For [solved] SnpEff reports intron variants in exons ?

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