User: anin.gregory

gravatar for anin.gregory
anin.gregory80
Reputation:
80
Status:
Trusted
Location:
United States
Last seen:
2 months, 1 week ago
Joined:
5 years, 10 months ago
Email:
a***********@gmail.com

about me

Posts by anin.gregory

<prev • 24 results • page 1 of 3 • next >
0
votes
0
answers
1.1k
views
0
answers
Comment: C: Tips for increasing metaSPAdes assembly speed for 7 billion reads?
... No, some benchmarking we did in our lab has shown that normalization reduces our contig lengths because SPAdes as it uses differential coverage to resolve ambiguities. ...
written 18 months ago by anin.gregory80
2
votes
0
answers
1.1k
views
5 follow
0
answers
Tips for increasing metaSPAdes assembly speed for 7 billion reads?
... I have 7 billion paired-end reads from multiple microbiome studies that I want to run a cross-assembly across using metaSPAdes. Background: - I need to use metaSPAdes - I have access to a 1.5TB memory node, where it can run almost indefinitely, but I have a deadline of October for the assembly ...
reads assembly metaspades spades metagenome written 18 months ago by anin.gregory80
0
votes
3
answers
675
views
3
answers
Answer: A: Could someone suggest a fast and efficient implementation of a glocal (semi-glob
... Nucmer, part of the Mummer package (http://mummer.sourceforge.net/). ...
written 20 months ago by anin.gregory80
2
votes
1
answer
2.2k
views
1
answer
Pulling out significant clusters from pvclust results?
... Hi! I have a heatmap of my expression data that I clustered using 1000bs in pvclust.  There are over 6000 rows and columns of my heatmap.  I was wondering if there is a way to pull out the significant clusters determined by pvclust.  I tried pulling the tree from the heatmap, but it gave me no taxa ...
expression data pvclust clustering heatmap written 4.0 years ago by anin.gregory80 • updated 4.0 years ago by 5heikki8.1k
1
vote
0
answers
2.6k
views
0
answers
Make A Fitness Landscape
... Hi I am trying to make a fitness landscape out of my data in R. I used a PCA plot to determine the location of each species in genotypic space and experimental data to determine the relative fitness of each species. I have columns of x, y, and z. However, x, y, and z values cannot be formatted int ...
written 5.3 years ago by anin.gregory80
0
votes
1
answer
3.6k
views
1
answers
Comment: C: Illumina Miseq Phix Quality Control (Sequencing Error Rates)
... we were given fully assembled genomes back from our sequencing facility and they did not give us an RTA report. By low genetic variation I am mean that there are very few heterozygous sites. ...
written 5.7 years ago by anin.gregory80
0
votes
0
answers
1.4k
views
0
answers
Comment: C: Find A (Gapped) Sequence Within A Multiple Sequence Alignment
... You could use GBlocks to remove all the gapped columns...but then that would throw off your position numbers ...
written 5.7 years ago by anin.gregory80
3
votes
1
answer
3.0k
views
1
answer
Convert .Maf To .Xmfa Alignment?
... Hi I am trying to use the Clonal Origin pipeline (https://code.google.com/p/clonalorigin/wiki/FromGenomeAssemblyToRecombination) and because I have so many genomes running progressiveMauve took too long. As a result, I used Mugsy and got a .maf output. For the pipeline, I need a .xmfa output. Does ...
maf alignment convert written 5.8 years ago by anin.gregory80 • updated 5.7 years ago by Hamish3.1k
0
votes
3
answers
2.4k
views
3
answers
Answer: A: Sequence Alignment Using Snap Tool
... try Mugsy (http://mugsy.sourceforge.net/) ...
written 5.8 years ago by anin.gregory80
1
vote
1
answer
2.3k
views
1
answer
How To Extract 2-Fold, 3-Fold And 4-Fold Degenerate Amino Acids From A Fasta File?
... Is there any easy script to pull 2-fold, 3-fold, and 4-fold degenerate amino acids from a fasta file? ...
amino-acids written 5.8 years ago by anin.gregory80 • updated 5.8 years ago by Asaf5.2k

Latest awards to anin.gregory

Popular Question 2.5 years ago, created a question with more than 1,000 views. For How To Extract 2-Fold, 3-Fold And 4-Fold Degenerate Amino Acids From A Fasta File?
Popular Question 2.9 years ago, created a question with more than 1,000 views. For How To Extract 2-Fold, 3-Fold And 4-Fold Degenerate Amino Acids From A Fasta File?
Popular Question 2.9 years ago, created a question with more than 1,000 views. For Convert .Maf To .Xmfa Alignment?
Popular Question 3.9 years ago, created a question with more than 1,000 views. For Illumina Miseq Phix Quality Control (Sequencing Error Rates)
Popular Question 3.9 years ago, created a question with more than 1,000 views. For Convert .Maf To .Xmfa Alignment?
Popular Question 4.0 years ago, created a question with more than 1,000 views. For Illumina Miseq Phix Quality Control (Sequencing Error Rates)
Popular Question 4.8 years ago, created a question with more than 1,000 views. For How To Print A Nested Perl Script Within Another Perl Script?
Popular Question 4.8 years ago, created a question with more than 1,000 views. For Illumina Miseq Phix Quality Control (Sequencing Error Rates)

Help
Access

Use of this site constitutes acceptance of our User Agreement and Privacy Policy.
Powered by Biostar version 2.3.0
Traffic: 730 users visited in the last hour