Moderator: genomax

gravatar for genomax
genomax46k
Reputation:
45,870
Status:
Trusted
Location:
United States
Last seen:
25 minutes ago
Joined:
2 years, 10 months ago
Email:
g*******@gmail.com

Posts by genomax

<prev • 8,439 results • page 1 of 844 • next >
0
votes
1
answer
16
views
1
answers
Answer: A: error in star
... You can't use wrong type of file. `/home/administrator/human/GCA_000001405.15_GRCh38_no_alt_analysis_set.fna` is a fasta format sequence file. You need a GTF format file for the `--sjdbGTFfile ` option. ...
written 1 hour ago by genomax46k
1
vote
0
answers
42
views
0
answers
Comment: C: GC count calculation of thousnds genes in several region
... https://www.biostars.org/p/70167/ ...
written 2 hours ago by genomax46k
0
votes
1
answer
113
views
1
answers
Comment: C: Problem with Tophat / Bowtie pipeline
... That option needs to be `--output-dir $oDirectory`. ...
written 4 hours ago by genomax46k
0
votes
3
answers
98
views
3
answers
Comment: C: Where can I download homo sapiens gene locations file including ensembl gene id,
... https://www.biostars.org/u/6141/ : Agreed. Depending on how savvy OP is they can choose an appropriate method to follow. ...
written 6 hours ago by genomax46k
0
votes
0
answers
86
views
0
answers
Comment: C: Combine the fastq files
... If what @Devon says is right i.e. `L1_1 `is actually `L001_R1` and `L2_1` is `L002_R1` then you would combine `L1_1` with `L2_1`. Then `L1_2` with `L2_2`. ...
written 7 hours ago by genomax46k
1
vote
1
answer
47
views
1
answers
Answer: A: install of STAR
... It does appear that `STAR` has been compiled. You would want to add this directory to your `$PATH` to make `STAR` seamlessley available. You can do `export PATH=$PATH:/the_dir_with_STAR`. Otherwise run it as `./STAR -h`. ...
written 7 hours ago by genomax46k
0
votes
0
answers
86
views
0
answers
Comment: C: Combine the fastq files
... Since these are not `fasta` files based on their names, I edited the title of the post to accurately reflect file type. Also see: https://www.biostars.org/p/311375/ ...
written 7 hours ago by genomax46k
0
votes
0
answers
86
views
0
answers
Comment: C: Combine the Fasta Files
... I am not sure why someone chose to change the `R1/R2` nomenclature for read files to `L1/L2` but you can combine R1 files together and R2 files together. You can't do them by clicking on the names in that view you have of some GUI. You will have to do that on the command line by using `cat R1_file ...
written 7 hours ago by genomax46k
1
vote
2
answers
53
views
2
answers
Answer: C: mRNA to protein
... EMBOSS is always a good source for these types of tools. `transeq` (for translation, http://emboss.sourceforge.net/apps/cvs/emboss/apps/transeq.html ) and `getorf` (http://emboss.sourceforge.net/apps/cvs/emboss/apps/getorf.html ) are relevant tools. There are web based version available if you wan ...
written 8 hours ago by genomax46k
1
vote
0
answers
103
views
0
answers
Comment: C: Finding pairwise alignment between two multifasta files for similarity search
... > 100ish nucleotides to 40kbp Doing pair wise comparisons does not appear wise in that case. ...
written 9 hours ago by genomax46k

Latest awards to genomax

Scholar 22 hours ago, created an answer that has been accepted. For A: Bulk quality filtering with bbduk
Teacher 3 days ago, created an answer with at least 3 up-votes. For A: Bulk quality filtering with bbduk
Scholar 4 days ago, created an answer that has been accepted. For A: Bulk quality filtering with bbduk
Scholar 5 days ago, created an answer that has been accepted. For A: Bulk quality filtering with bbduk
Commentator 5 days ago, created a comment with at least 3 up-votes. For C: How to get work experience in Bioinformatics
Teacher 6 days ago, created an answer with at least 3 up-votes. For A: Bulk quality filtering with bbduk
Scholar 6 days ago, created an answer that has been accepted. For A: Bulk quality filtering with bbduk
Teacher 7 days ago, created an answer with at least 3 up-votes. For A: Bulk quality filtering with bbduk
Scholar 7 days ago, created an answer that has been accepted. For A: Bulk quality filtering with bbduk
Scholar 7 days ago, created an answer that has been accepted. For A: Bulk quality filtering with bbduk
Scholar 8 days ago, created an answer that has been accepted. For A: Bulk quality filtering with bbduk
Appreciated 8 days ago, created a post with more than 5 votes. For C: Difference between lower and upper case N in soft masked genome
Teacher 8 days ago, created an answer with at least 3 up-votes. For A: Bulk quality filtering with bbduk
Scholar 8 days ago, created an answer that has been accepted. For A: Bulk quality filtering with bbduk
Scholar 15 days ago, created an answer that has been accepted. For A: Bulk quality filtering with bbduk
Commentator 17 days ago, created a comment with at least 3 up-votes. For C: How to get work experience in Bioinformatics
Appreciated 19 days ago, created a post with more than 5 votes. For A: Big news from Microsoft. BASH on windows.
Teacher 19 days ago, created an answer with at least 3 up-votes. For A: Bulk quality filtering with bbduk
Scholar 19 days ago, created an answer that has been accepted. For A: Bulk quality filtering with bbduk
Scholar 21 days ago, created an answer that has been accepted. For A: Bulk quality filtering with bbduk
Teacher 21 days ago, created an answer with at least 3 up-votes. For A: Bulk quality filtering with bbduk
Commentator 23 days ago, created a comment with at least 3 up-votes. For C: How to get work experience in Bioinformatics
Scholar 23 days ago, created an answer that has been accepted. For C: Save .sam file in a target directory
Teacher 28 days ago, created an answer with at least 3 up-votes. For C: Save .sam file in a target directory
Scholar 28 days ago, created an answer that has been accepted. For C: Save .sam file in a target directory

Help
Access

Use of this site constitutes acceptance of our User Agreement and Privacy Policy.
Powered by Biostar version 2.3.0
Traffic: 986 users visited in the last hour