User: Chvatil

gravatar for Chvatil
Chvatil40
Reputation:
40
Status:
New User
Location:
Last seen:
9 hours ago
Joined:
2 years, 3 months ago
Email:
b****************@gmail.com

Posts by Chvatil

<prev • 134 results • page 1 of 14 • next >
0
votes
2
answers
76
views
2
answers
Comment: C: Size of the nr database fasta file?
... Thank you very much for the answer ...
written 8 days ago by Chvatil40
2
votes
2
answers
76
views
2
answers
Size of the nr database fasta file?
... Hello everyone, I'm trying to download the database nr and it is still downloading in fact and its size is actually `100Gb` So I think this is a good question for those who want to know how to estimate the disk space needed to download all the `fasta file`? So if anyone knows where I can find th ...
ncbi database nr written 8 days ago by Chvatil40 • updated 7 days ago by brian.fristensky90
3
votes
2
answers
87
views
2
answers
Eucaryotic gene predictor within eucaryote genome
... Hello everyone, I created this post to ask you some advice to find a suitable tool. Indeed, I am looking for a program that can predict *eukaryotic genes* in an **assembled genome.** I know **Augustus3.3** for example but I can't find a statistical confidence metric related to the predicted genes. ...
gene written 15 days ago by Chvatil40 • updated 15 days ago by Juke344.4k
0
votes
0
answers
69
views
0
answers
disable the SRA cache in HISAT2
... Hello, I found many posts talking about this subject but none of them explain how to do that. In fact I ran a **HISAT2** analysis on my data, for that I use the `--sra-acc` option with the sra IDS. Then I map these read against a fasta genome assembly. But during the process I get this error mes ...
rnaseq hisat mapping written 19 days ago by Chvatil40
0
votes
1
answer
61
views
1
answers
Comment: C: Test if a list of genes with coordinates are expressed (hisat2 data)
... Thanks but I have around thousand of candidate gene and I need to get a more general method .. ...
written 22 days ago by Chvatil40
0
votes
1
answer
61
views
1
answer
Test if a list of genes with coordinates are expressed (hisat2 data)
... Hello everyone, I need some help in order to know wether candidates genes are expressed or not. In order to do that I have already done the following steps : **3 Built hisat indexes** $HISAT2/hisat2-build Assembly.fa mapping_index **2 Mapper the RNA reads to the assembly** $HISAT2 ...
rna-seq transcription written 23 days ago by Chvatil40 • updated 22 days ago by khorms120
0
votes
0
answers
99
views
0
answers
Comment: C: Using Bowtie and SRA mode
... It is the same, this is the option that is not recognized ...
written 7 weeks ago by Chvatil40
0
votes
0
answers
99
views
0
answers
Comment: C: Using Bowtie and SRA mode
... I tried to dowload `wget https://sourceforge.net/projects/bowtie-bio/files/bowtie2/2.4.1/bowtie2-2.4.1-linux-x86_64.zip` but I still get the same issue it does not recognise the '--sra-acc' option... ...
written 7 weeks ago by Chvatil40
0
votes
0
answers
99
views
0
answers
Comment: C: Using Bowtie and SRA mode
... I built my db with : /beegfs/data/my_conda/bin/bowtie2-build -f /beegfs/data/Genomes/Vcanescens/Vcanescens.fa Bowtie_db_Vcanescens then I ran : /beegfs/data/my_conda/bin/bowtie2 -x /beegfs/data/Genomes/Vcanescens/Bowtie_db_Vcanescens -S /beegfs/data/Genomes/Vcanescens/Mapping/Bowtie_ ...
written 7 weeks ago by Chvatil40
0
votes
0
answers
99
views
0
answers
Using Bowtie and SRA mode
... Hello I need to map reads on a genome in fasta file format. For that I installed `Bowtie2 v2.4.1`(last version) with biodonda by doing : conda install bowtie2 Everything went right and I can run bowtie2 properly. But I need to use the `--sra-acc` option and in the documentation they say : ...
mapping bowtie written 7 weeks ago by Chvatil40

Latest awards to Chvatil

Supporter 14 days ago, voted at least 25 times.
Popular Question 5 weeks ago, created a question with more than 1,000 views. For Issue using MaSuRCA-3.2.6
Popular Question 3 months ago, created a question with more than 1,000 views. For compare 2 dataframe with pandas
Popular Question 3 months ago, created a question with more than 1,000 views. For compare 2 dataframe with pandas
Popular Question 13 months ago, created a question with more than 1,000 views. For Cannot install NumPy using pip and import it
Popular Question 13 months ago, created a question with more than 1,000 views. For compare 2 dataframe with pandas
Centurion 13 months ago, created 100 posts.
Epic Question 13 months ago, created a question with more than 10,000 views. For C extension: No module named 'pandas._libs.tslib' not built (pandas)
Popular Question 13 months ago, created a question with more than 1,000 views. For Cannot install NumPy using pip and import it
Popular Question 14 months ago, created a question with more than 1,000 views. For Cannot install NumPy using pip and import it
Popular Question 17 months ago, created a question with more than 1,000 views. For compare 2 dataframe with pandas
Great Question 17 months ago, created a question with more than 5,000 views. For compare 2 dataframe with pandas
Great Question 20 months ago, created a question with more than 5,000 views. For C extension: No module named 'pandas._libs.tslib' not built (pandas)
Popular Question 22 months ago, created a question with more than 1,000 views. For compare 2 dataframe with pandas
Popular Question 2.0 years ago, created a question with more than 1,000 views. For compare 2 dataframe with pandas
Popular Question 2.0 years ago, created a question with more than 1,000 views. For C extension: No module named 'pandas._libs.tslib' not built (pandas)
Rising Star 2.2 years ago, created 50 posts within first three months of joining.

Help
Access

Use of this site constitutes acceptance of our User Agreement and Privacy Policy.
Powered by Biostar version 2.3.0
Traffic: 1621 users visited in the last hour