User: soleimani_homa

Reputation:
0
Status:
New User
Last seen:
1 year, 4 months ago
Joined:
2 years, 2 months ago
Email:
s*************@yahoo.com

Profile information, website and location are not shown for new users.

This helps us discourage the inappropriate use of our site.

Posts by soleimani_homa

<prev • 10 results • page 1 of 1 • next >
0
votes
1
answer
551
views
1
answer
ensembl - Gene ID - Transcript ID
... Hi every one I have several genomic regions, when i search them in ensembl , I encounter such a page: [chicken genome region][1] What is differences between Gene Ensembl with different colour and part? [1]: https://asia.ensembl.org/Gallus_gallus/Location/View?r=2%3A130986544-131255044 ...
genome ensembl transcriptome written 18 months ago by soleimani_homa0 • updated 18 months ago by Emily_Ensembl21k
0
votes
1
answer
409
views
1
answers
Comment: A: depth of coverage - ANOVA - R
... Since ANOVA is run in each row for each position of genome between breeds, and the number of positions are around 900,000, I can't plot them, so I want to know is it necessary checking the normality? How can I do that? If Shapiro Test is over-sensitive what procedure is recommended? Thank you for yo ...
written 20 months ago by soleimani_homa0
0
votes
1
answer
409
views
1
answers
Comment: C: depth of coverage - ANOVA - R
... Hi Kevin Blighe, thanks for the reply. I have 115 samples totally, each breed has 20 or 25 samples. Before doing ANOVA should I do a normality test (Shapiro test) or dip test or a non-parametric ANOVA (Kruskal-Wallis test)? Which one is better? At first I did the dip test, but most of the positions ...
written 20 months ago by soleimani_homa0
4
votes
1
answer
409
views
1
answer
depth of coverage - ANOVA - R
... Hello, I'm analyzing output of depth of coverage between five breeds. I want to understand where the depth of coverage of genome has changed between five breeds. I have 5 files containing positions in the rows and samples of each breeds in the columns. then I joint them . Now I want to perform an A ...
R depth of coverage anova written 20 months ago by soleimani_homa0
0
votes
1
answer
1.0k
views
1
answers
Comment: C: losing reads bam to fastq
... OK,Thanks very much for you patient explain. ...
written 2.0 years ago by soleimani_homa0
0
votes
1
answer
1.0k
views
1
answers
Comment: C: losing reads bam to fastq
... Thanks a lot for you kind help. ...
written 2.0 years ago by soleimani_homa0
4
votes
1
answer
1.0k
views
5 follow
1
answer
losing reads bam to fastq
... Hi all, I am trying to realign a whole genome BAM file from one reference genome to another. Because the reference genome is updated. The process involves converting the name-sorted BAM file to fastq, then realigning the fastq to a new reference. 1. `samtools sort -n input.bam -o input_n.sorted.bam ...
fixmate fastq bam whole genome sequencing written 2.0 years ago by soleimani_homa0 • updated 2.0 years ago by finswimmer14k
0
votes
0
answers
1.6k
views
0
answers
(Closed) How to extract fasta sequence from BAM files generated using BWA
... Hi everyone, I need to convert a BAM to a FASTA. BAM file generated by BW aligner. I need forward and reverse sequences separately in fasta format. I appreciate any of your solutions. Thanks a lot! ...
fasta alignment bam sequencing written 2.1 years ago by soleimani_homa0
0
votes
1
answer
1.0k
views
1
answers
Comment: C: best way to separate copy number variations from VCF files
... Thanks a lot for the reply Since my VCF files are derived from the GATK software, I would prefer to continue the path with the GATK. Do you have any suggestions for separating the CNVs from the VCF file using GATK? ...
written 2.2 years ago by soleimani_homa0
3
votes
1
answer
1.0k
views
1
answer
best way to separate copy number variations from VCF files
... Hi I am interested in finding copy number variation in my samples. I have raw VCF files. I have looked at the previous questions, but I have not gotten one clear answer. Is there a walker to find CNV's (duplications or deletions) in GATK from raw VCF files? Hope to hear from you soon. Regards Hom ...
snp cnvs written 2.2 years ago by soleimani_homa0 • updated 2.2 years ago by WouterDeCoster45k

Latest awards to soleimani_homa

No awards yet. Soon to come :-)

Help
Access

Use of this site constitutes acceptance of our User Agreement and Privacy Policy.
Powered by Biostar version 2.3.0
Traffic: 1007 users visited in the last hour