User: Lesley Sitter

gravatar for Lesley Sitter
Lesley Sitter460
Reputation:
460
Status:
Trusted
Location:
Netherlands
Website:
https://nl.linkedin.co...
Last seen:
3 days, 1 hour ago
Joined:
4 years, 6 months ago
Email:
l***********@hotmail.com

Ellow peeps, I'm Lesley.
I have a BASc in biochemistry and a MSc in bio-informatics, currently doing a PhD with both wet and drylab experiments.
My interests in regards to bio-informatics lie in NGS data, genome assembly, genotyping, comparative genomics and marker detection.


 

Posts by Lesley Sitter

<prev • 60 results • page 1 of 6 • next >
0
votes
0
answers
92
views
0
answers
Why are Roary pan-genome plots whisker plots instead of point plots?
... Hi there, been using Roary for 3 years now... awesome tool! i'm just curious how it is that all the plots it produces aren't single values? For example... the "Number of unique genes" plot should just be a fixed single value of the number of unique genes am i right? So how come it's a collection of ...
R roary written 3 days ago by Lesley Sitter460
0
votes
1
answer
9.2k
views
1
answers
Comment: C: A:orthomcl with local mysql server on linux server, complete install
... Hey Hudak7, sorry my project was over a year after the post so I kinda just left it to die (not much activity on it) I think it's a version control issue, when I used it there were some command that worked, that didn't seem to work anymore a year later. I'm very sorry but I won't be able to help you ...
written 11 months ago by Lesley Sitter460
2
votes
2
answers
3.2k
views
2
answers
Answer: A: genome assembly software
... Keep in mind that most of the people here (bioinformaticians) are Linux based, and there is a good reason we stick to Linux for this type of stuff (windows based software are often unstable when dealing with this type of data sets).... BUT! DNA Star https://www.dnastar.com/ It's not my favorite bec ...
written 2.6 years ago by Lesley Sitter460
0
votes
2
answers
1.4k
views
2
answers
Answer: A: Kmergenie k-mer estimate and multiple k-mers
... The graphs produced by K-mer genie are specificity vs sensitivity comparisons... depending on the kmer size you get a set of sequences that are unique vs the total amount of unique sequences. If you have too little unique sequences, you can't expand your contigs... if they aren't unique enough you'l ...
written 2.6 years ago by Lesley Sitter460
1
vote
2
answers
1.1k
views
2
answers
Comment: C: explaining N50 to grand mother
... Good point :P but doesn't your index become larger? (there are often more small contigs than large contigs) So if you show it it seems that you have a huge amount of large contigs while in fact your were just looking at it from the wrong side up. ...
written 3.6 years ago by Lesley Sitter460
1
vote
2
answers
1.1k
views
2
answers
Comment: C: explaining N50 to grand mother
... The N50 is ordered from longest to shortest and is then the first "long" contig that passes the 50% mark, not the other way around as you mentioned. At least, that is the method used in general papers and even Wikipedia (and we all know that everything on Wikipedia is the absolute truth XD) ...
written 3.6 years ago by Lesley Sitter460
2
votes
2
answers
1.1k
views
2
answers
Answer: A: explaining N50 to grand mother
... I would draw something to explain it. Telling her that a genome is very large and that is is very hard to find out the 1:1 exact order. Therefore you sequence contigs (or genome fragments or something like that). These fragments are ordered from large to small. You then count up the large fragments ...
written 3.6 years ago by Lesley Sitter460
2
votes
73
answers
31k
views
73
answers
Answer: A: What Are The Most Common Stupid Mistakes In Bioinformatics?
... How about writing a tool and being convinced it works perfectly, so you start testing it on a complete dataset instead of testing it first on a subset and finding out after it ran for an hour or so that you made a tiny mistake somewhere. Sooo much time wasted that i'll never get back :P ...
written 3.6 years ago by Lesley Sitter460
2
votes
3
answers
18k
views
3
answers
Comment: C: How Can I Count Snps In My Vcf Files?
... You should post this as a separate question seeing as it has nothing to do with counting SNPs, and also you posted this as an answer which it isn't. I would suggest you post a new question, that works a lot better because this post already has 3 answers so most people will probably ignore it  ...
written 3.6 years ago by Lesley Sitter460
0
votes
1
answer
1.5k
views
1
answers
Comment: C: Extracting column value from csv file according to if else and & operator
... It also is a duplicate question, see post; 156628 (https://www.biostars.org/p/156628/) ...
written 3.6 years ago by Lesley Sitter460

Latest awards to Lesley Sitter

Appreciated 2.3 years ago, created a post with more than 5 votes. For A:orthomcl with local mysql server on linux server, complete install
Popular Question 2.3 years ago, created a question with more than 1,000 views. For Removing contigs with improbable coverage using R?
Popular Question 2.3 years ago, created a question with more than 1,000 views. For Optimal minimum read length PE HiSeq reads for denovo assembly
Scholar 2.3 years ago, created an answer that has been accepted. For A: Maker annotation failure
Great Question 2.5 years ago, created a question with more than 5,000 views. For A:orthomcl with local mysql server on linux server, complete install
Appreciated 2.8 years ago, created a post with more than 5 votes. For A:orthomcl with local mysql server on linux server, complete install
Popular Question 3.2 years ago, created a question with more than 1,000 views. For A:orthomcl with local mysql server on linux server, complete install
Teacher 3.6 years ago, created an answer with at least 3 up-votes. For A: probability of mapping a random string of four nucleotides in a genome
Scholar 3.7 years ago, created an answer that has been accepted. For A: Maker annotation failure
Teacher 3.7 years ago, created an answer with at least 3 up-votes. For A: probability of mapping a random string of four nucleotides in a genome
Scholar 3.8 years ago, created an answer that has been accepted. For A: Maker annotation failure
Scholar 3.8 years ago, created an answer that has been accepted. For A: Maker annotation failure
Autobiographer 3.9 years ago, has more than 80 characters in the information field of the user's profile.
Popular Question 4.2 years ago, created a question with more than 1,000 views. For A:orthomcl with local mysql server on linux server, complete install

Help
Access

Use of this site constitutes acceptance of our User Agreement and Privacy Policy.
Powered by Biostar version 2.3.0
Traffic: 1687 users visited in the last hour