User: Fabio Marroni

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Fabio Marroni2.6k
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Italy
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http://www.fabiomarron...
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Posts by Fabio Marroni

<prev • 415 results • page 1 of 42 • next >
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Comment: C: Samtools faidx not printing reverse complement
... Try `samtools faidx ./file_1.fasta -i MHLFILTNLILPAFEDLAQG` or `samtools faidx -i ./file_1.fasta MHLFILTNLILPAFEDLAQG` ...
written 6 weeks ago by Fabio Marroni2.6k
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Comment: C: samtools subsampling reads
... The pattern is perfectly fine, and statistically expected. Highly covered regions in the original genome, are also more likely to be sampled by random sampling, so you will always (more or less) keep the same pattern of coverage, but at lower levels. ...
written 6 weeks ago by Fabio Marroni2.6k
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Comment: C: samtools subsampling reads
... Which samtools version are you using? Some time ago (I don't remember the version) you needed to use a comma delimited number in which the integer is the seed and the decimal the proportion you want to extract. I had similar issues, and posted everything here on Biostars. You can give a look at this ...
written 7 weeks ago by Fabio Marroni2.6k
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Comment: C: Using a script to create a binary file. Help with arguments
... To get more help you should post the whole error message. However, it looks like either `de$cp1_LFC` or `de$cp1_padj` are not defined. ...
written 8 weeks ago by Fabio Marroni2.6k
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Comment: C: Salmon indexing directory missing files?
... The files seabass_index_dups.e8760153.1 seabass_index_dups.o8760153.1 seabass_index_dups.pe8760153.1 seabass_index_dups.po8760153.1 are the log files form your queuing system. Read them and see if there is an error. The missing files are probably due to the fact that the indexing ...
written 8 weeks ago by Fabio Marroni2.6k
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Comment: C: Strange Mean-Variance plot after Voom Normalization (RNAseq)
... Probably this isn't the problem, but the variance is (standard deviation)^2 while you are plotting sqrt(standard deviation). ...
written 10 weeks ago by Fabio Marroni2.6k
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Comment: C: Role of large/small sample size in adjusting p-value
... > "due to small sample size, p-values were not adjusted" Wow! This is a sentence that I could write! However, my friends that know more about statistics would translate it as: > "since we don't have enough power, in order to find some significant result, we will inflate type I error by not ...
written 11 weeks ago by Fabio Marroni2.6k
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Comment: C: ERROR:Error in x[seq_len(n)] : object of type 'S4' is not subsettable
... `head(phyloseq)` or `head(physeq)`? ...
written 3 months ago by Fabio Marroni2.6k
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Comment: C: Why sortmerna 4.2.0 runs so slow?
... I would either try another installation (source code or conda), or ask authors for help. The behavior is strange indeed. ...
written 5 months ago by Fabio Marroni2.6k
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Comment: C: Why sortmerna 4.2.0 runs so slow?
... Wow, I didn't even know about 4.2.0. I followed the link on the paper and got version 2.1. Just out of curiosity, are you using the binaries or you compiled from source code? I don't know if this could affect (it shouldn't but you never know). ...
written 5 months ago by Fabio Marroni2.6k

Latest awards to Fabio Marroni

Teacher 7 weeks ago, created an answer with at least 3 up-votes. For A: Heritability of pigmentation traits
Popular Question 6 months ago, created a question with more than 1,000 views. For topGO is performing enrichment test on GO terms that are not present in my dataset
Scholar 14 months ago, created an answer that has been accepted. For A: what does Num_Probes in a segmentation file refer to?
Scholar 16 months ago, created an answer that has been accepted. For A: what does Num_Probes in a segmentation file refer to?
Teacher 16 months ago, created an answer with at least 3 up-votes. For A: What Is Ivsi Number Of A Mutation?
Scholar 20 months ago, created an answer that has been accepted. For A: what does Num_Probes in a segmentation file refer to?
Teacher 22 months ago, created an answer with at least 3 up-votes. For A: What Is Ivsi Number Of A Mutation?
Scholar 22 months ago, created an answer that has been accepted. For A: what does Num_Probes in a segmentation file refer to?
Good Answer 22 months ago, created an answer that was upvoted at least 5 times. For A: Sample Sam File
Teacher 2.3 years ago, created an answer with at least 3 up-votes. For A: What Is Ivsi Number Of A Mutation?
Appreciated 2.4 years ago, created a post with more than 5 votes. For A: What Is Ivsi Number Of A Mutation?
Teacher 2.8 years ago, created an answer with at least 3 up-votes. For A: What Is Ivsi Number Of A Mutation?
Scholar 2.9 years ago, created an answer that has been accepted. For A: what does Num_Probes in a segmentation file refer to?
Appreciated 2.9 years ago, created a post with more than 5 votes. For A: What Is Ivsi Number Of A Mutation?
Commentator 2.9 years ago, created a comment with at least 3 up-votes. For C: error in R
Scholar 3.0 years ago, created an answer that has been accepted. For A: what does Num_Probes in a segmentation file refer to?
Scholar 3.0 years ago, created an answer that has been accepted. For A: what does Num_Probes in a segmentation file refer to?
Teacher 3.1 years ago, created an answer with at least 3 up-votes. For A: What Is Ivsi Number Of A Mutation?
Scholar 3.1 years ago, created an answer that has been accepted. For A: what does Num_Probes in a segmentation file refer to?
Teacher 3.1 years ago, created an answer with at least 3 up-votes. For A: What Is Ivsi Number Of A Mutation?
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