User: mks002

gravatar for mks002
mks002100
Reputation:
100
Status:
Trusted
Location:
Bangalore. India
Last seen:
4 weeks ago
Joined:
2 years, 5 months ago
Email:
m******************@gmail.com

Posts by mks002

<prev • 58 results • page 1 of 6 • next >
0
votes
0
answers
77
views
0
answers
Error running PBJelly
... dear all, While running Pbjelly, I am getting error at extraction level. Can anyone please help out to work this thing 2 018-05-23 16:24:36,150 [INFO] Loaded 6445214 Reads 2018-05-23 16:24:41,994 [INFO] Parsed 338 Reads Traceback (most recent call last): File "/usr/bin/Extraction ...
software error assembly sequencing written 4 weeks ago by mks002100
0
votes
0
answers
284
views
0
answers
Masurca Assembler for 450 mb genome
... Hello all, I have started the assembly with Short insert and Long insert and Mate pair reads with 100X genome coverage. It has taken around 1.5 Tb ram and running from past one day. There is no issue with space. Kmer i have given as "auto" so its running with 31 kmer and work2.1 files are genera ...
genome assembly ngs next-gen written 5 months ago by mks002100
0
votes
1
answer
588
views
1
answers
Comment: C: Goat Genome gene prediction
... Hello, I took little time but the gff was generated, Below is the look of my gff i used -g option for pulling out the gff. ##gff-version 3 ### ### Scaffold_21964|length1264 maker gene 741 1212 . + . ID=maker-Scaffold_21964|length1264-exonerate_pr ...
written 7 months ago by mks002100
0
votes
1
answer
588
views
1
answers
Comment: C: Goat Genome gene prediction
... Hello, My maker run is over Below is the Output `Start_time: 1509976900 End_time: 1511273877 Elapsed: 1296977` Not able to merge the gff. Can u help me out. ...
written 7 months ago by mks002100
0
votes
1
answer
588
views
1
answers
Comment: C: Goat Genome gene prediction
... Hello, I think that maker is now on final step. Below is the out put what i m seeing. cleaning blastx... in cluster::shadow_cluster... ...finished clustering. in cluster::shadow_cluster... ...finished clustering. cleaning clusters.... total clusters:37 now processing 0 ...
written 7 months ago by mks002100
0
votes
0
answers
228
views
0
answers
Finding lysogenic gene in phage
... Hello all, can one suggest what would the possible approach for finding out the lysogenic gene, since we have identified the lytic gene. Can any one tell the factors to be considered for lysogenic property study in the genome. ...
genome assembly next-gen gene sequencing written 7 months ago by mks002100
0
votes
1
answer
588
views
1
answers
Comment: C: Goat Genome gene prediction
... Hello Puli, Maker i started and it is running from past 12 days. Why its taking so much time ? ( 12 threads i had given ) It created around 254 folders and each folders has > 100 subfolders. Total of > 35000 folders for each scaffold i guess. I have around ~3gb genome and ~45k scaffolds. I ...
written 7 months ago by mks002100
0
votes
1
answer
588
views
1
answers
Comment: C: Goat Genome gene prediction
... I have >100Mb some 10 scaffolds. And picking one one gene would not be feasible i think need to rework some other way. ...
written 7 months ago by mks002100
1
vote
1
answer
588
views
1
answers
Comment: C: Goat Genome gene prediction
... Now since Augustus gene models are already there can we go ahead with training steps. Since Genome size ~3 gb it is quite time taking to go through all the processes. Can we do one step of training the augustus and work on it. Artemis loading this big genome also is great trouble (error in loadin ...
written 7 months ago by mks002100
0
votes
1
answer
588
views
1
answers
Comment: C: Goat Genome gene prediction
... For Artemis which bam file to upload since no alignment was performed. For this assembly Rna-seq data is not available. So we can go ahead ? what would be feasible solution. ...
written 7 months ago by mks002100

Latest awards to mks002

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: 697 users visited in the last hour