Research Tools
Title:
Research ToolsFormation Date:
2023-05-31
Zotero
Installation & Env. setting
Project managements
조테로 기본 사용 workflow
- Sorting
- 🏷️Tag Taxonomy를 활용하여 프로젝트에 맞는 태그 작성
- Check Progress
- 🏷️Tag Taxonomy 활용하여 progress 확인가능
- 읽어야 할 논문, 읽고 있는 논문 수 등
- 🏷️Tag Taxonomy 활용하여 progress 확인가능
- single article을 obsidian 에 연동
- citekey 로 표시하여 추후 integration 대비
- 추후 @ 붙이고, 링크로 바꾸기
- citekey 로 표시하여 추후 integration 대비
Indexing ideas within same projects from multiple articles
여러 논문의 정보를 빠르게 인덱싱하는 workflow
- 아이디어 생성
- 전체 논문에서 필요한 annotation들을 모두 작성
- tag로 동일 프로젝트 논문들 선택
- MOC note 생성 : 각 논문의 annotation 이 어느정도 완성되면 모든 project 논문의 annotation으로 부터 note 생성
- 제목에 프로젝트명 추가 (예시: CTgenetics_Annotations)
==- 각 논문의 정보는 해당 논문 제목에 annotation 하여 표기 고려- 논문의 summary 혹은 어떤 논문인지 보이도록==
- 제목에 프로젝트명 추가 (예시: CTgenetics_Annotations)
- 해당 노트에서 생각나는 내용 검색 및 show on Page를 통해 접근
- cf. show item은 해당 논문을 보여줌
refs in core ref.
중심이 되는 저널에 인용된 논문들을 같이 인용할 때의 workflow
- refs in core ref 노트 생성
- 중심저널의 reference list 에서 인용할 논문 복사하여 노트에 붙여넣기
- 자동으로 어느 중심 저널에서 복사되었는지 링크가 생성됨
- 논문의 어디에 인용되는지 소제목 활용
- 조테로 라이브러리에는 아직 추가하지 않고, 투고 전 추가!
- 중심저널의 reference list 에서 인용할 논문 복사하여 노트에 붙여넣기
- 투고 전 논문추가
- 브라우저 즐겨찾기의 crossref 활용 소스검색
- 우클릭 -> '링크복사' -> 조테로 '식별자로 항목추가'
- 간혹 안찾아지는 1990년대 이전 옛날 논문은 pubmed search 후 PMID 활용
- ✅ 를 사용하지 않고 남겨두기(라이브러리 내 빠른 식별 위함)
- 우클릭 -> '링크복사' -> 조테로 '식별자로 항목추가'
- MS워드로 이동 조테로 add-in 실행(alt + C + C )
- '클래식 뷰' -> '복수의 출처...' -> ✅태그 안 된 논문 확인
- 입력일을 column 에 추가하여 정렬 활용해도 됨
- 기존 인용된 논문이 있는 경우, 꼭 '복수의 출처...'를 먼저 누르고 추가논문을 넣어야 기존 논문이 사라지지 않음
- '클래식 뷰' -> '복수의 출처...' -> ✅태그 안 된 논문 확인
- 인용 완료 후 다시 조테로에 돌아가서 ✅ 태그 남겨, 인용된 논문으로 바꿈
- 브라우저 즐겨찾기의 crossref 활용 소스검색
CSL
- 편집
- 저자 수 : et-al-use-first= 찾기
- 본문내 스타일
- 병렬배치
- 괄호 밖에서 구분하기
<layout delimiter=", ">
<group prefix="[" suffix="]" delimiter=", ">
<text variable="citation-number"/>
<text macro="citation-locator"/>
</group>
- 괄호 안에서 ; 로 구분하기
<layout prefix="(" suffix=")" delimiter="; ">
<group delimiter=", ">
<group delimiter=" ">
<text macro="author-short"/>
<text macro="year-date"/>
</group>
<text macro="locator"/>
</group>
</layout>
- babiliography style
- 폰트 : font, italic 등 검색
- doi / website 정보
delimiter-precedes-last="always"/>
<label form="short" prefix=", "/>
<substitute>
<names variable="editor"/>
<text macro="title"/>
</substitute>
</names>
</group>
</macro>
<macro name="access">
<choose>
<if type="article-newspaper" match="none">
<choose>
<if variable="DOI">
<text value="doi:"/>
<text variable="DOI"/>
</if>
<else-if variable="URL">
<group delimiter=". ">
<choose>
<if type="webpage post post-weblog" match="any">
<date variable="issued" prefix="Published " form="text"/>
</if>
</choose>
Link
Obsidian
Plugins
- Text generator
- ChatGPT 와 연동
- 템플레잇을 활용하여 미리 prompt를 생성하고 Ctrl + Shift + J 로 실행함.
- Obsidian to notion
- Notion 과 연동 : Ctrl + Shift + I 에 할당함
- 세팅
- API key 확인 : My integrations | Notion Developers
- Database ID : / 뒤부터 ? 앞에까지
- 제작자가 설명하지 않고있는 연동에 필수적인 요소
- 8500단어 이내
- bullet 혹은 numbered list 의 깊이가 최대 3레벨
- 버그
- 4레벨 이상 bullet 있을 때 400에러
- link 는 상관 없음
- Advanced Tables
- Toolbar of table editing tools
- hotkeys for table traversing with
tab
,⇧tab
, and¬
- Better Word Count
- Count of words and character in a note
- Better than core plugin
- Count of the above in a given selection
- Count of words and character in a note
- Calendar Plugin
- manage daily notes better
- find missing days
- see writing activity
- Copy button for code blocks
- In preview, being able to copy the entire code block to the clipboard
- Discord rich presence
- Lets people know you're working in Obsidian and what note you're looking at
- Editor Syntax highlighting
- See code highlighting in fenced code areas in edit mode
- Emoji Toolbar Picker
- pick from a command launcher the emoji to insert with
⌘/Ctrl+.
- pick from a command launcher the emoji to insert with
- Jump to link
- In edit mode highlight links like the vim browser plugins for navigation
^+'
- Mindmap
- very useful for viewing file breakdowns by heading organization
- activating the map on a file with
⌥+M
- Natural Language
- This lets you speak plain english for date processing
- dependency for the Review plugin
- Note Refactor
- will pull content from a selection in edit mode for a new note creation
⌘⇧C
will take selection- Will prompt with dialog box for new notes name
- make a new note with just the content inserted into it
⌘⇧N
will take the selection- first line of selection will be the new notes file name
- Content is put inside the note
- will pull content from a selection in edit mode for a new note creation
- Obsidian To Anki
- Obsidian Vimrc Loader
- Allows simple mappings of vim keybindings
- Open Random Note
- Similar to built in plugin but can pick items from search, so a search that can exclude paths and tags can be made
⌘⇧O
open random note from search
- Pane Switcher
- to be able to cycle R --> L with open panes with
^+Tab
- this lets me navigate back with
⌘⌥→
or⌘⌥←
- this lets me navigate back with
- to be able to cycle R --> L with open panes with
- Paste URL onto selection
⌘⇧V
With a selection in edit mode a link on your clipboard will be pasted over the selection in markdown format- Quick Switcher++
- same uses as Quick switcher
⌥+O
- but also new note content searching with
@
- Allows to search for file name then auto complete the name with
@
that searches for the contents of that file
- but also new note content searching with
- same uses as Quick switcher
- Reading Time
- Using a word count of the file, based on a setting of WPM how long to read that note
- Review
- Useful for making tickler files for GTD
- send whole note to be reviewed:
⌥⇧R
- send block/line to be reviewed:
⌥+R
- Show Whitespace
- See tabs, spaces, and carriage returns in edit mode
- Sliding panes
- ANDY MODE!
- Templater
⌘⇧I
Inserting the output of shell commands into a note
- Typewriter Mode
<CR>
's cause text to shift up and cursor to stay put- toggle is
^+T
Typewriter - toggling zen mode is
^+L
Lights on
- toggle is
- Workbench
- main use is to send and delete blocks from the workbench file with hotkeys.
- Send a block embed use
⌥+C
Hotkey
Mermaid
About Mermaid | Mermaid
Gantt diagrams | Mermaid
Zettelkasten
Overleaf
Draft management
Springer Nature
-
투고케이스 : BMK Muskuloskeletal Disorders(EAGdynamic)
-
Documentclass :
\documentclass[referee,pdflatex,sn-vancouver-num]{sn-jnl}
- refree : 2줄 간격
- lineno : 줄번호
- 그런데 refree랑 충돌하는 일이 잦아서 ChatGPT 통해 아래처럼 수정
\documentclass{article} \usepackage{lineno} % 줄 번호 패키지 \usepackage{setspace} % 줄 간격 패키지 \begin{document} \doublespacing % 줄 간격 설정 (먼저 선언) \linenumbers % 줄 번호는 이후에 적용 \renewcommand\baselinestretch{2} % lineno를 위해 줄 간격 명시적 재설정 \renewcommand\linenumberfont{\normalfont\large} % 큰 글자 \section{Significance of Exploring dynamic cartilage-generated potentials} The phenomenon of electrical signals being triggered by biological tissue strain \end{document}
- 그런데 refree랑 충돌하는 일이 잦아서 ChatGPT 통해 아래처럼 수정
-
Section
- \section*{섹션제목} : 넘버링을 따라가지 않는 섹션에서 * 표시
-
Itemize
- bullet point 로 표현해줌
\begin{itemize} \item Competing interests \\ Not applicable \end{itemize}
Table
\begin{table}[htbp] % h: here, t: top, b: bottom, p: page
\centering
\caption{Table Title}
\label{tab2} %본문에서 \ref{tab2}로 연결
\renewcommand{\arraystretch}{1.3} % 행 간격 늘리기
\begin{tabular}{@{}p{1.3cm}p{1.5cm}p{1.5cm}p{1.8cm}p{2.0cm}p{1.8cm}@{}}
\toprule
\textbf{Phase} & \textbf{Active Extension (N=55)} & \textbf{Passive Extension (N=55)} & \textbf{Univariate p-value} & \textbf{Multivariate Estimate (SE)} & \textbf{Multivariate p-value} \\
\midrule
\multirow{2}{*}{APA (mV)} & -0.70 & -0.34 & 0.197 & -- & -- \\
& [-1.39; 0.15] & [-0.97; 0.31] & & & \\
\midrule
\multirow{2}{*}{PAPA (mV)} & -1.62 & -0.87 & $<$0.001*** & -0.77 (0.14) & $<$0.001*** \\
& [-2.99; -0.94] & [-1.39; -0.43] & & & \\
\midrule
\multirow{2}{*}{RPA (mV)} & 0.30 & 0.39 & 0.986 & -- & -- \\
& [-0.65; 0.85] & [-0.17; 0.80] & & & \\
\midrule
\multirow{2}{*}{PRPA (mV)} & 1.27 & 0.81 & 0.011* & -0.46 (0.15) & 0.002** \\
& [0.64; 2.38] & [0.40; 1.79] & & & \\
\bottomrule
\end{tabular}
\vspace{1ex}
{\footnotesize
Non-normally distributed continuous variables are summarized with median [interquartile range].\\
SE, standard error; APA, activity phase amplitude; PAPA, post-activity phase amplitude; RPA, return phase amplitude; PRPA, post-return phase amplitude.\\
A generalized linear mixed model (GLMM) was fitted for the multivariable analysis, incorporating the following covariates: age, sex, height, BMI, thigh circumference, and calf circumference.\\
* p-value$<$0.05, ** p-value$<$0.01, *** p-value$<$0.001.
}
\end{table}
Figure
\begin{figure}[h]
\centering
\includegraphics[width=0.9\textwidth]{Figure3.pdf} %첨부한 파일 링크
\caption{\textbf{ Deep learning model structure for EAG classification.} The model takes time series data of size (201, 8, 1) as input. The initial Convolutional Layer uses a 3x3 kernel with 16 filters to extract spatial features and introduces nonlinearity through the ReLU activation function. The following MaxPooling2D layer reduces the spatial dimensions to retain important information. The second Convolutional Layer uses a 3x3 kernel and 32 filters to learn more complex features. This is followed by a Reshape layer that converts the 2D output to a 1D format, leading into Conv1D layers. The first Conv1D layer uses a kernel of size 3 with 32 filters to detect temporal patterns, followed by MaxPooling1D to reduce the time dimension. The second Conv1D layer uses a kernel of size 3 with 64 filters to learn more complex temporal patterns, with another MaxPooling1D layer to further reduce the time dimension. Finally, Fully Connected Layers, including a Flatten layer that converts data into a 1D array, and several Dense layers, allow the model to learn features and perform classification. Dropout layers are employed to prevent overfitting during training. The final output layer, with 8 neurons and a softmax activation function, performs multiclass classification.}
\label{fig3}
\end{figure}
Citations
- zotero 에서 bib 파일로 library 내보내기
- 단발성 : 내라이브러리 > 라이브러리내보내기 > Better Bibtex > Background export
- 자동화 : 내라이브러리 > 라이브러리내보내기 > Better Bibtex > Keep update
- Overleaf에서 사용
- 예를들어 libraryme.bib 파일이 었다면, 아래 옵션에 .bib 제외하고 삽입
- \bibiolgraphy
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