Hello friend. I found your video very usefull. One tiny recommendation: The music in the background could be optimized. Thank you for sharing your knowledge.
Sometimes Sanger sequences have troubles in their flanking regions, only then we can trim these regions. Better to do your tree with and without trimming and see which one is more logical
70% similarity is weak. It means that your sequence does not match any sequence in the GenBank. Perhaps there was a problem with your sequence. I will not build my analysis on such a low similarity percentage
عند هاي الخطوة 3:17 مابيرضى يعمل ألاين وبيعطيني تنبيه Failed to load fast file. Data parsing error. Expected sequence but none found. Access violation. كيف ممكن احلها😢
The video was very informative, I have used this same procedure and at last when I use MUSCLE->Align DNA, it shows like "Application Error finalizing MUSCLE alignment: Unable to open file" why it is showing like this, can you help me sir?
same problem i faced. then i just went to that specific site of sequence(shown in number in error pop-up) and then just replaced '?' (for 'N' nucleotides) with '-' and it worked.
هل من الافضل انى لما اعمل submission for my seq اختار انى اختار مده مثلا 7 اشهر حتى انشر شغلى فى مجله ولا اعمل immediate release? على gene bank?? شكرا لحضرتك يا دكتور
Sir can you please make videos on how to use spss for associated risk factor of intestinal parasitic infection using logistic regression method?? Please...i am so much confused to use bivariate multinomial regression
There are softwares that help in trimming. Trimming can be done by removing areas with extensive Ns. Replace the N with (?). Remove the beginning and the ends of sequences that extend beyond your reference strain or target area. I once built a tree with and without trimming. Both were almost similar. Of course, you have to use reasonable sequences which do not have many Ns.
Hi, and thanks for the video. Please, I need help, because I did the alignments with muscle and I saved it in mega format. But when I need to do the phylogenetic tree, appear an error that says: "Aligned sequences must be equal lengths". How can I solve this? Thanks!
Thank you so much sir for this useful video, I met a problem in the last step for creating the tree did not appear and an error was found (no common sites found for computing distances.....)
The music makes this sound like a motivational video😂, probably fitting. Need David Goggins to narrate this XD
Thanks to your video I made my first phylogenetic tree
Good luck
Thank you! Very simple and informative tutorial! 👍
Hello friend.
I found your video very usefull.
One tiny recommendation: The music in the background could be optimized.
Thank you for sharing your knowledge.
Weldone
Wonderful teaching ！ So easy and comprehensive ！！
Extraordinary video sir . Jazak Allah
Goal is to simplify research
thank you so much; you save my life because your video was so easy and comprehensive
Thank you so much, Your video very good.
Ambience is so epic 😁
Excellent video, also I love the music!
very usefull video, thanks a lot my friend.
Thanks so much. Very simple and to the point video.
Nice class! Thanks for it...
Thank you so much for the simple explanation!
THANK YOU FREIND
Thanks! it worked just fine
Nice to hear that
I heard that the front and rear sequences should be cut to match the length of the sequences after alignment. Is that process unnecessary?
Sometimes Sanger sequences have troubles in their flanking regions, only then we can trim these regions. Better to do your tree with and without trimming and see which one is more logical
Thanks for the heads-up!
هل يا دكتور لو بابحث باستخدام blast ووجدت ان الجين مقارب فقط بنسبه 70% من السلالات المقترحه وليس 99% او 100% فمامعنى حوث هذا؟؟؟شكرا مقدما لحضرتك
70% similarity is weak. It means that your sequence does not match any sequence in the GenBank. Perhaps there was a problem with your sequence. I will not build my analysis on such a low similarity percentage
عند هاي الخطوة 3:17 مابيرضى يعمل ألاين
وبيعطيني تنبيه
Failed to load fast file. Data parsing error. Expected sequence but none found. Access violation.
كيف ممكن احلها😢
I suggest using the attached file as a template as the base for your work. You may also try to re-install the MEGA.
thank u sir
Can you please tell me how to display the bootstrap value? I did select the bootstrap value of 1000 but didn't get it displayed on the tree.
great video, bad background music. too distracting.
The video was very informative, I have used this same procedure and at last when I use MUSCLE->Align DNA, it shows like "Application Error finalizing MUSCLE alignment: Unable to open file" why it is showing like this, can you help me sir?
same problem i faced. then i just went to that specific site of sequence(shown in number in error pop-up) and then just replaced '?' (for 'N' nucleotides) with '-' and it worked.
هل من الافضل انى لما اعمل submission for my seq اختار انى اختار مده مثلا 7 اشهر حتى انشر شغلى فى مجله ولا اعمل immediate release? على gene bank?? شكرا لحضرتك يا دكتور
Immediate
Thanks so much. It was quite useful.
Sir can you please make videos on how to use spss for associated risk factor of intestinal parasitic infection using logistic regression method?? Please...i am so much confused to use bivariate multinomial regression
This is very important in research. You may refer to one of my publications: pubmed.ncbi.nlm.nih.gov/31829156/
Hi! Just wondering where can I trim my alligment from starting and end region.
There are softwares that help in trimming. Trimming can be done by removing areas with extensive Ns. Replace the N with (?). Remove the beginning and the ends of sequences that extend beyond your reference strain or target area. I once built a tree with and without trimming. Both were almost similar. Of course, you have to use reasonable sequences which do not have many Ns.
Im having a midlife crisis listening to this beautifully depressive music
please, what is the song playing ?
Journey beyond the stars.... the music is a really nice touch to the video
Sir how can i construct a phylogenetic tree from phytochemicals using mega?
How to allign protein sequences.?
Hi, and thanks for the video. Please, I need help, because I did the alignments with muscle and I saved it in mega format. But when I need to do the phylogenetic tree, appear an error that says: "Aligned sequences must be equal lengths". How can I solve this? Thanks!
I never had this problem despite using sequences with variable lengths. Maybe the lengths of your sequences are extremely variable.
Delete extra sequences
make them equal in length by adding ----------
You remind me of Dr Zola from Avengers
Thank you so much sir for this useful video, I met a problem in the last step for creating the tree did not appear and an error was found (no common sites found for computing distances.....)
Same what Did u do for that
Kindly reply as fast as possible because I have to submit it
epic
The background music distract me from the useful information and important steps.
You background music ruined me. But very great video ❤️
Hi
Just I'm asking if you have email and I have many questions to ask
Many thanks
Check in my publications in PubMed. Or send me your mail privately
@@ameral-jawabreh9778 ur email plz
Again, Check-in my publications in PubMed. Or send me your mail privately