User: Antonio R. Franco

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Location:
Spain. Universidad de Córdoba
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33 minutes ago
Joined:
4 years, 2 months ago
Email:
a*******@uco.es

Posts by Antonio R. Franco

<prev • 561 results • page 1 of 57 • next >
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Answer: A: FastQ ColorSpace to BaseSpace format in 2018
... You cannot convert colorSpace to base format. One incorrect color/transition will propagate such that all the remaining bases will be incorrect upon conversion. Old versions of Tophat still can map solid sequences. You are running out of alternatives ...
written 5 weeks ago by Antonio R. Franco3.9k
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Answer: A: weird number in log2FC
... Try to include dec="," as well in the write.table command, specially if your excel recognize the "," as the decimal digit ...
written 5 weeks ago by Antonio R. Franco3.9k
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Comment: C: Orientation of PE reads a review of --fr --ff and --rf meanings
... Wondering why these schemes (Igor's) end with a PCR reaction. If you do a PCR before loading the sequenced into a massive sequencer, you lose the stranded information, so I believe these are sort of confusing In addition.. I believe Igor's schemes are not right. In the dUTP method it ends with a fr ...
written 7 weeks ago by Antonio R. Franco3.9k
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Comment: C: Installing samtools from sourceforge
... are you in the same directory that samtools is ? In addition... is the samtools file executable ?. You can see it by running ls -l You need to see an "x" at least in the first group of letters after the hyphen If not, run chmod +x samtools ...
written 8 weeks ago by Antonio R. Franco3.9k
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Answer: A: Installing samtools from sourceforge
... It is likely you don't have the samtools executable binary in the $PATH. If so, try to run it by using ./samtools when you are in the directory containing the program ...
written 8 weeks ago by Antonio R. Franco3.9k
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Answer: A: Per base GC content with a shoulder after adapter removal and trimming
... Shoulders in this graphics are usually compatible with at least two issues 1. Presence of contaminant DNA 2. Poor quality in the sequencing The point2 can be solved at least in part after a quality trimming. If the shoulder persist after the quality trimming a contamination fo your samples can be ...
written 10 weeks ago by Antonio R. Franco3.9k
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Comment: C: CpG Methylation data from PacBio sequencing
... Of course no. I was simply trying to indicate that if you don't add methylated precursors to your PCR it is impossible to include methylated bases to your DNA. And if you add such as methylated precursors they will not follow the original pattern in any case ...
written 10 weeks ago by Antonio R. Franco3.9k
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Answer: A: CpG Methylation data from PacBio sequencing
... Neither you add methylated precursors in the PCR to maintain that status. That will be worthless in any case ...
written 10 weeks ago by Antonio R. Franco3.9k
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Answer: A: design matrix for time point comparision [1 treatment] in time course RNA Seq -
... Why don't you use specialized R packages for time course such as [impulseDE2][1] or [maSigPro][2] [1]: https://www.bioconductor.org/packages/release/bioc/html/ImpulseDE2.html [2]: https://www.bioconductor.org/packages/release/bioc/html/maSigPro.html ...
written 11 weeks ago by Antonio R. Franco3.9k
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Answer: A: How to use simultaneously long and short reads to assemble de novo a transcript
... Obviously it depends on the program you use [Oases][1] for example, uses categories or "channels" each one defined as long, short, paired, single, etc in the command lane. This let you use all kind of reads, and even a reference If compiled by default, you can use 2 of these categories. But you de ...
written 12 weeks ago by Antonio R. Franco3.9k

Latest awards to Antonio R. Franco

Popular Question 26 days ago, created a question with more than 1,000 views. For Recommended coverage for methylome analysis
Scholar 4 weeks ago, created an answer that has been accepted. For A: How to find the Genes present in the sequence?
Teacher 4 weeks ago, created an answer with at least 3 up-votes. For A: is there any databse that provides the promoter of a specific gene?
Appreciated 5 weeks ago, created a post with more than 5 votes. For A: Must know algorithms before attending a bioinformatics interview
Teacher 8 weeks ago, created an answer with at least 3 up-votes. For A: is there any databse that provides the promoter of a specific gene?
Teacher 9 weeks ago, created an answer with at least 3 up-votes. For A: is there any databse that provides the promoter of a specific gene?
Teacher 11 weeks ago, created an answer with at least 3 up-votes. For A: is there any databse that provides the promoter of a specific gene?
Teacher 12 weeks ago, created an answer with at least 3 up-votes. For A: is there any databse that provides the promoter of a specific gene?
Popular Question 4 months ago, created a question with more than 1,000 views. For Recommended coverage for methylome analysis
Popular Question 6 months ago, created a question with more than 1,000 views. For Recommended coverage for methylome analysis
Popular Question 7 months ago, created a question with more than 1,000 views. For How to get native bash in Windows 10
Appreciated 8 months ago, created a post with more than 5 votes. For A: Must know algorithms before attending a bioinformatics interview
Student 8 months ago, asked a question with at least 3 up-votes. For Is qPCR actually required for RNA-Seq validation ?
Teacher 9 months ago, created an answer with at least 3 up-votes. For A: is there any databse that provides the promoter of a specific gene?
Scholar 9 months ago, created an answer that has been accepted. For A: How to find the Genes present in the sequence?
Teacher 9 months ago, created an answer with at least 3 up-votes. For A: is there any databse that provides the promoter of a specific gene?
Popular Question 10 months ago, created a question with more than 1,000 views. For How to get native bash in Windows 10
Popular Question 11 months ago, created a question with more than 1,000 views. For How to get native bash in Windows 10
Teacher 12 months ago, created an answer with at least 3 up-votes. For A: is there any databse that provides the promoter of a specific gene?
Epic Question 12 months ago, created a question with more than 10,000 views. For Can the code of a R package be changed? How?
Good Answer 13 months ago, created an answer that was upvoted at least 5 times. For A: Can I assemble a Eukaryote RNA-Seq using my laptop?
Appreciated 13 months ago, created a post with more than 5 votes. For A: Must know algorithms before attending a bioinformatics interview
Popular Question 15 months ago, created a question with more than 1,000 views. For Cuffcompare. Differences between class codes "=" and "i"
Teacher 16 months ago, created an answer with at least 3 up-votes. For A: is there any databse that provides the promoter of a specific gene?
Popular Question 18 months ago, created a question with more than 1,000 views. For Cuffcompare. Differences between class codes "=" and "i"

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