MBG | Minimizer based sparse de Bruijn Graph constructor | Genomics library
kandi X-RAY | MBG Summary
kandi X-RAY | MBG Summary
Minimizer based sparse de Bruijn Graph constructor. Homopolymer compress input sequences, pick syncmers from hpc-compressed sequences, connect syncmers with an edge if they are adjacent in a read, unitigify and homopolymer decompress. Suggested input is PacBio HiFi/CCS reads. May or may not work with Illumina reads. Algorithmic details and citation: Bioconda: conda install -c bioconda mbg. eg MBG -i reads.fa -o graph.gfa -k 1501 -w 1450 -a 1 -u 3. Multiple read files can be inputted with "-i file1.fa -i file2.fa" etc. Input read type can be .fa / .fq / .fa.gz / .fq.gz. k and w can be arbitrarily large but at some point the error rate and limited read length will cause the graph to be fragmented. Runtime stays approximately the same if the ratio k/w is kept constant. All repeats shorter than k are separated, all repeats longer than k+w are collapsed, and repeats in between may be separated or collapsed depending on if a k-mer was selected from within the repeat. When using --blunt, you should clean the graph afterwards with vg. --blunt uses an extension of an algorithm invented by Hassan Nikaein (personal communication).
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QUESTION
In my Spring boot+ hibernates+mysql application I have my own UserRepository
:
ANSWER
Answered 2020-Sep-30 at 03:11The (?, ?, ?, ...) is normal in hibernate logs, the actual parameter values are not logged, that doesn't mean that the inserted values are null.
Note that the query is inserting the field "create_ime" and the error says the column that does not accept nulls is "create_time", so it seems you have both columns in the table, probably caused by a typo correction or rename.
QUESTION
This is my example. From this data frame I want to create a new data frame that contains the rows that based on matches in column, mgb and column, tsg thereby omitting the other rows.
...ANSWER
Answered 2020-Apr-10 at 14:42If you would simply like to remove NA's and write to a new dataframe:
QUESTION
Can you set custom suffix and naming rule mapper xml and interfaces in MyBatis Generator (MBG)?
For example, When generating mapper files for class Book. MBG generates mapper file BookMapper.xml and interface PartnerDao.java. However, I wish to change the suffix to something else, like BookMapperBase.xml or BookDaoBase.xml, and PartnerMapperBase.java or PartnerDaoBase.java.
The reason is, former colleagues were using BookMapper.xml for their hand-written sql statements and using the same name would cause confusion. Moreover, I do not wish to use generated mappers directly, but use custom mapper files that extend BookMapperBase.xml.
I have searched online and found some github projects and hot rod ORM, but is it really not supported by official Mybatis Generator? If not, what is your recommended alternative?
...ANSWER
Answered 2019-May-15 at 20:04There are a couple of options.
You could use a domain object renaming rule as documented here: http://www.mybatis.org/generator/configreference/domainObjectRenamingRule.html
If that doesn't work the way you want it to, you could write a MyBatis Generator plugin to change the names of the generated artifacts. There is an example here: https://github.com/mybatis/generator/blob/master/core/mybatis-generator-core/src/main/java/org/mybatis/generator/plugins/RenameExampleClassPlugin.java
QUESTION
I'm trying to get the position by getting the latitude and longitude from an xml document, through an xslt stylesheet. I made xslt variables which return the correct latitude and longitude when I call them (for example with xsl:value-of). But I can't seem to access the same variables in the javascript snipet. From what I read it's possible to call an xslt variable inside javascript. So I don't know what I'm doing wrong.
Here is my code:
...ANSWER
Answered 2018-Sep-26 at 21:19I think you need to change your Javascript code to have a function you can call to create the appropriate map and marker, so outside of any grouping you put
QUESTION
I have this xml:
...ANSWER
Answered 2018-Sep-23 at 19:01Add the required braces to the second expression like below. In your sample code the first and the last values are output twice due to the xsl:for-each
(don't know what it's good for).
QUESTION
im trying to switch a background image out based upon the window size...
...ANSWER
Answered 2018-Apr-20 at 08:01You need to do something like this, where you use url(...)
with the image source path
QUESTION
I use the following code which get applied on two different pages because both pages are using the same element:
...ANSWER
Answered 2018-Jan-25 at 01:42I'm a little confused as to what your'e asking, but assuming you're asking how you can hide elements that have both the classes .SocialBar
and .PersonalHome-interests
, but show elements that only have the class .SocialBar
, all you need to do is combine the class selectors into one as .SocialBar.PersonalHome-interests.u-mbg
, and hide that.
Because you're specifically targetting elements that have both classes, the element that only has one of the two classes will not have the display: none
rule apply to it (and so it will remain visible).
This can be seen in the following:
QUESTION
Today I saw the following PHP code snippets in the code of some files of my project. The code was single line. I have used PHP Formatter (http://beta.phpformatter.com/), but I still have not figured it out.
Do you have any idea what it is?
...ANSWER
Answered 2017-Nov-28 at 23:03I'm not gona writing a full tutorial about reverse engineering such code, but because I was curious, what your snippet really does, I did some work.
If you follow all encoding layers, you will end with this code:
QUESTION
I want to send a message to a BLE device. In my understanding one first has to discover the devices services and then send the message to a service characteristic. So here is what I did:
...ANSWER
Answered 2017-Sep-05 at 12:45You need to call discoverServices
from within the onConnectionStateChange
method of your GATT callback. Documentation of the discoverServices
method:
Discovers services offered by a remote device as well as their characteristics and descriptors.
This is an asynchronous operation. Once service discovery is completed, the
onServicesDiscovered(BluetoothGatt, int)
callback is triggered. If the discovery was successful, the remote services can be retrieved using thegetServices()
function.
In your case, updating your code as follows should do the trick:
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