## User: laura_savana

laura_savana •

**20**- Reputation:
**20**- Status:
- New User
- Location:
- Last seen:
- 3 weeks, 5 days ago
- Joined:
- 4 months, 1 week ago
- Email:
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#### Posts by laura_savana

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... You really helped me!
Thanks a lot!
Now everything is clear. ...

written 29 days ago by
laura_savana •

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... > Yes, that's right.
Ok, thank you.
> You mean "why they set the constant value (-2) for penalty"?
No, no, I don't understand why they progressively multiply gap insertion penalty by 1, 2, 3, 4 etc...
I don't understand why they initialized first row and first column of alignment matrix in ...

written 4 weeks ago by
laura_savana •

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... > "the fist cell of directions matrix" means top left cell?
Exactly! You understood what I was referring to.
Thank you!!
So, in the global alignment to reconstruct the alignment I must start from the bottom-right cell in the direction matrix, instead in the semi-global I start from the greate ...

written 4 weeks ago by
laura_savana •

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... Hi everyone, I have many doubts about dynamic programming, in particular, I am interested about global alignment of two sequences considering both gap insertion and gap extension penalties.
I hope strongly that someone of you can help me. I am desperate.
I know that to compute the best global alig ...

written 4 weeks ago by
laura_savana •

**20**• updated 4 weeks ago by fishgolden •**360**0

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... Thank for your advice.
I thought that wasn't necessary post also example code.
So, I report the python script to plot a histogram with its kde. At bottom there is link to see the output.
> Blockquote
import numpy as np
import pandas as pd
from scipy import stats
import matplotlib.pyplot as ...

written 11 weeks ago by
laura_savana •

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... Hi, I have a question about how overlap more "kernel density estimations" in Python.
I have 12 list of values and I plot for each of them kernel density estimation.
I would overlap these 12 different kde in the same plot.
Someone know how make this?
Thank you ...

written 12 weeks ago by
laura_savana •

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... Thank you so much!!! ...

written 4 months ago by
laura_savana •

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... Thank you so much h.mon.
In my researches I found the EMBOSS mailing and also files on github where was showed the same output (commented lines code in which appear creator's name and last name of substitution matrix and representation of such matrix).
Maybe I can find a guideline in BioStars thr ...

written 4 months ago by
laura_savana •

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... Hi, I'm new of Biostars.
I think this forum is very interesting and useful.
I'm sure that I find the answer to my question here.
My question concern the most used nucleotide substitution matrix: + 5 / -4.
I found that this values are probabilities rounded to nearest integer and that Todd Lowe c ...

written 4 months ago by
laura_savana •

**20**• updated 4 months ago by pevsner •**420**#### Latest awards to laura_savana

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